as-cle-bert
commited on
Upload folder using huggingface_hub
Browse files- README.md +37 -0
- checkpoint-450/config.json +55 -0
- checkpoint-450/model.safetensors +3 -0
- checkpoint-450/optimizer.pt +3 -0
- checkpoint-450/rng_state.pth +3 -0
- checkpoint-450/scheduler.pt +3 -0
- checkpoint-450/trainer_state.json +523 -0
- checkpoint-450/training_args.bin +3 -0
- config.json +55 -0
- model.safetensors +3 -0
- special_tokens_map.json +7 -0
- tokenizer.json +194 -0
- tokenizer_config.json +58 -0
- training_args.bin +3 -0
- training_params.json +30 -0
- vocab.txt +30 -0
README.md
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---
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tags:
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- autotrain
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- text-classification
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widget:
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- text: "I love AutoTrain"
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datasets:
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- as-cle-bert/AMR-Gene-Families
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---
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# Model Trained Using AutoTrain
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- Problem type: Text Classification
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## Validation Metrics
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loss: 0.08235077559947968
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f1_macro: 0.986759581881533
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f1_micro: 0.99
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f1_weighted: 0.9899790940766551
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precision_macro: 0.9871615312791784
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precision_micro: 0.99
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precision_weighted: 0.9901213818860879
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recall_macro: 0.986574074074074
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recall_micro: 0.99
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recall_weighted: 0.99
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accuracy: 0.99
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checkpoint-450/config.json
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{
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"_name_or_path": "Rostlab/prot_bert",
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"_num_labels": 12,
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"architectures": [
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"BertForSequenceClassification"
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],
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"attention_probs_dropout_prob": 0.0,
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"classifier_dropout": null,
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"hidden_act": "gelu",
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"hidden_dropout_prob": 0.0,
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"hidden_size": 1024,
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"id2label": {
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"0": "PDC beta-lactamase",
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"1": "CTX-M beta-lactamase",
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"2": "SHV beta-lactamase",
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"3": "CMY beta-lactamase",
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"4": "resistance-nodulation-cell division (RND) antibiotic efflux pump",
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"5": "major facilitator superfamily (MFS) antibiotic efflux pump",
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"6": "quinolone resistance protein (qnr)",
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"7": "IMP beta-lactamase",
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"8": "KPC beta-lactamase",
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"9": "ACT beta-lactamase",
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"10": "MCR phosphoethanolamine transferase",
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"11": "VIM beta-lactamase"
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},
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"initializer_range": 0.02,
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"intermediate_size": 4096,
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"label2id": {
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"ACT beta-lactamase": 9,
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"CMY beta-lactamase": 3,
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"CTX-M beta-lactamase": 1,
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"IMP beta-lactamase": 7,
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"KPC beta-lactamase": 8,
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"MCR phosphoethanolamine transferase": 10,
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"PDC beta-lactamase": 0,
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"SHV beta-lactamase": 2,
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"VIM beta-lactamase": 11,
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"major facilitator superfamily (MFS) antibiotic efflux pump": 5,
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"quinolone resistance protein (qnr)": 6,
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"resistance-nodulation-cell division (RND) antibiotic efflux pump": 4
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},
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"layer_norm_eps": 1e-12,
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"max_position_embeddings": 40000,
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"model_type": "bert",
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"num_attention_heads": 16,
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"num_hidden_layers": 30,
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"pad_token_id": 0,
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"position_embedding_type": "absolute",
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"problem_type": "single_label_classification",
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"torch_dtype": "float32",
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"transformers_version": "4.39.0",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 30
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}
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checkpoint-450/model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:7b482ed0644cc263571f364d2f8c163134071cf2e1f377000fdb9576dad99882
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size 1679832496
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checkpoint-450/optimizer.pt
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version https://git-lfs.github.com/spec/v1
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oid sha256:9309b9d765925a9e41447d54c63767cfe3285429cae7a8e089794f2e91b70bb1
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size 3359943437
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checkpoint-450/rng_state.pth
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version https://git-lfs.github.com/spec/v1
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oid sha256:5e721764cfe6d7ef80d19a2ff27d723d65ac25eb377b60bb6e4c10a66202a1bf
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size 13990
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checkpoint-450/scheduler.pt
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version https://git-lfs.github.com/spec/v1
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oid sha256:7f2295262c8b0cd31776d8d5f370bfd4d7da47a787dc53758a73b3dbb54b80f3
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size 1064
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checkpoint-450/trainer_state.json
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|
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|
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checkpoint-450/training_args.bin
ADDED
@@ -0,0 +1,3 @@
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|
1 |
+
version https://git-lfs.github.com/spec/v1
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2 |
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oid sha256:a181d426a846aed31d185c1c8e7462bde216a5de70b47a96fc82542bdb87ea9d
|
3 |
+
size 4920
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config.json
ADDED
@@ -0,0 +1,55 @@
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|
1 |
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{
|
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|
3 |
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|
4 |
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|
5 |
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|
6 |
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|
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|
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|
12 |
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|
13 |
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|
14 |
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|
15 |
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"2": "SHV beta-lactamase",
|
16 |
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"3": "CMY beta-lactamase",
|
17 |
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"4": "resistance-nodulation-cell division (RND) antibiotic efflux pump",
|
18 |
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"5": "major facilitator superfamily (MFS) antibiotic efflux pump",
|
19 |
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"6": "quinolone resistance protein (qnr)",
|
20 |
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"7": "IMP beta-lactamase",
|
21 |
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"8": "KPC beta-lactamase",
|
22 |
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"9": "ACT beta-lactamase",
|
23 |
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"10": "MCR phosphoethanolamine transferase",
|
24 |
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"11": "VIM beta-lactamase"
|
25 |
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|
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|
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|
28 |
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|
29 |
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|
30 |
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|
31 |
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|
32 |
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|
33 |
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|
34 |
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|
35 |
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|
36 |
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|
37 |
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|
38 |
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|
39 |
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|
40 |
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|
41 |
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|
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|
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|
44 |
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|
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|
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|
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|
48 |
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|
49 |
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|
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"torch_dtype": "float32",
|
51 |
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|
52 |
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|
53 |
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|
54 |
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"vocab_size": 30
|
55 |
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|
model.safetensors
ADDED
@@ -0,0 +1,3 @@
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|
1 |
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version https://git-lfs.github.com/spec/v1
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2 |
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oid sha256:7b482ed0644cc263571f364d2f8c163134071cf2e1f377000fdb9576dad99882
|
3 |
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size 1679832496
|
special_tokens_map.json
ADDED
@@ -0,0 +1,7 @@
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{
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|
3 |
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"mask_token": "[MASK]",
|
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"pad_token": "[PAD]",
|
5 |
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"sep_token": "[SEP]",
|
6 |
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"unk_token": "[UNK]"
|
7 |
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}
|
tokenizer.json
ADDED
@@ -0,0 +1,194 @@
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
tokenizer_config.json
ADDED
@@ -0,0 +1,58 @@
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|
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|
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|
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|
44 |
+
"clean_up_tokenization_spaces": true,
|
45 |
+
"cls_token": "[CLS]",
|
46 |
+
"do_basic_tokenize": true,
|
47 |
+
"do_lower_case": false,
|
48 |
+
"full_tokenizer_file": null,
|
49 |
+
"mask_token": "[MASK]",
|
50 |
+
"model_max_length": 1000000000000000019884624838656,
|
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 |
+
}
|
training_args.bin
ADDED
@@ -0,0 +1,3 @@
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|
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|
|
|
|
|
1 |
+
version https://git-lfs.github.com/spec/v1
|
2 |
+
oid sha256:a181d426a846aed31d185c1c8e7462bde216a5de70b47a96fc82542bdb87ea9d
|
3 |
+
size 4920
|
training_params.json
ADDED
@@ -0,0 +1,30 @@
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|
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|
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|
|
|
|
1 |
+
{
|
2 |
+
"data_path": "as-cle-bert/AMR-Gene-Families",
|
3 |
+
"model": "Rostlab/prot_bert",
|
4 |
+
"lr": 5e-05,
|
5 |
+
"epochs": 3,
|
6 |
+
"max_seq_length": 128,
|
7 |
+
"batch_size": 8,
|
8 |
+
"warmup_ratio": 0.1,
|
9 |
+
"gradient_accumulation": 1,
|
10 |
+
"optimizer": "adamw_torch",
|
11 |
+
"scheduler": "linear",
|
12 |
+
"weight_decay": 0.0,
|
13 |
+
"max_grad_norm": 1.0,
|
14 |
+
"seed": 42,
|
15 |
+
"train_split": "train",
|
16 |
+
"valid_split": "test",
|
17 |
+
"text_column": "text",
|
18 |
+
"target_column": "label",
|
19 |
+
"logging_steps": -1,
|
20 |
+
"project_name": "autotrain-fzudm-korrh",
|
21 |
+
"auto_find_batch_size": false,
|
22 |
+
"mixed_precision": "no",
|
23 |
+
"save_total_limit": 1,
|
24 |
+
"save_strategy": "epoch",
|
25 |
+
"push_to_hub": true,
|
26 |
+
"repo_id": "as-cle-bert/autotrain-fzudm-korrh",
|
27 |
+
"evaluation_strategy": "epoch",
|
28 |
+
"username": "as-cle-bert",
|
29 |
+
"log": "none"
|
30 |
+
}
|
vocab.txt
ADDED
@@ -0,0 +1,30 @@
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|
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|
|
|
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|
|
|
1 |
+
[PAD]
|
2 |
+
[UNK]
|
3 |
+
[CLS]
|
4 |
+
[SEP]
|
5 |
+
[MASK]
|
6 |
+
L
|
7 |
+
A
|
8 |
+
G
|
9 |
+
V
|
10 |
+
E
|
11 |
+
S
|
12 |
+
I
|
13 |
+
K
|
14 |
+
R
|
15 |
+
D
|
16 |
+
T
|
17 |
+
P
|
18 |
+
N
|
19 |
+
Q
|
20 |
+
F
|
21 |
+
Y
|
22 |
+
M
|
23 |
+
H
|
24 |
+
C
|
25 |
+
W
|
26 |
+
X
|
27 |
+
U
|
28 |
+
B
|
29 |
+
Z
|
30 |
+
O
|