Commit
•
c4a7b07
1
Parent(s):
fcf5eb5
Upload 10 files
Browse files- adapter_model.bin +3 -0
- added_tokens.json +7 -0
- optimizer.pt +3 -0
- rng_state.pth +3 -0
- scheduler.pt +3 -0
- special_tokens_map.json +7 -0
- tokenizer_config.json +54 -0
- trainer_state.json +189 -0
- training_args.bin +3 -0
- vocab.txt +33 -0
adapter_model.bin
ADDED
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
1 |
+
version https://git-lfs.github.com/spec/v1
|
2 |
+
oid sha256:43b452dd060767dd70f47cedeaf44542b697374130a372bf310a1f45bd6c156f
|
3 |
+
size 316315
|
added_tokens.json
ADDED
@@ -0,0 +1,7 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
1 |
+
{
|
2 |
+
"<cls>": 0,
|
3 |
+
"<eos>": 2,
|
4 |
+
"<mask>": 32,
|
5 |
+
"<pad>": 1,
|
6 |
+
"<unk>": 3
|
7 |
+
}
|
optimizer.pt
ADDED
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
1 |
+
version https://git-lfs.github.com/spec/v1
|
2 |
+
oid sha256:0246b16ad2a4ff5346cc7cd436d9865710a83f218ce64578c913184989a1485a
|
3 |
+
size 613061
|
rng_state.pth
ADDED
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
1 |
+
version https://git-lfs.github.com/spec/v1
|
2 |
+
oid sha256:cd9c5833a930482059798aab998f33fa3d0167a6fcf4b32dba0ae0b19178c0c2
|
3 |
+
size 14575
|
scheduler.pt
ADDED
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
1 |
+
version https://git-lfs.github.com/spec/v1
|
2 |
+
oid sha256:081e2d3bd93b47a1a918240d8077826ebb0b43206a9f65cc14d171889238fc62
|
3 |
+
size 627
|
special_tokens_map.json
ADDED
@@ -0,0 +1,7 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
1 |
+
{
|
2 |
+
"cls_token": "<cls>",
|
3 |
+
"eos_token": "<eos>",
|
4 |
+
"mask_token": "<mask>",
|
5 |
+
"pad_token": "<pad>",
|
6 |
+
"unk_token": "<unk>"
|
7 |
+
}
|
tokenizer_config.json
ADDED
@@ -0,0 +1,54 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
1 |
+
{
|
2 |
+
"added_tokens_decoder": {
|
3 |
+
"0": {
|
4 |
+
"content": "<cls>",
|
5 |
+
"lstrip": false,
|
6 |
+
"normalized": false,
|
7 |
+
"rstrip": false,
|
8 |
+
"single_word": false,
|
9 |
+
"special": true
|
10 |
+
},
|
11 |
+
"1": {
|
12 |
+
"content": "<pad>",
|
13 |
+
"lstrip": false,
|
14 |
+
"normalized": false,
|
15 |
+
"rstrip": false,
|
16 |
+
"single_word": false,
|
17 |
+
"special": true
|
18 |
+
},
|
19 |
+
"2": {
|
20 |
+
"content": "<eos>",
|
21 |
+
"lstrip": false,
|
22 |
+
"normalized": false,
|
23 |
+
"rstrip": false,
|
24 |
+
"single_word": false,
|
25 |
+
"special": true
|
26 |
+
},
|
27 |
+
"3": {
|
28 |
+
"content": "<unk>",
|
29 |
+
"lstrip": false,
|
30 |
+
"normalized": false,
|
31 |
+
"rstrip": false,
|
32 |
+
"single_word": false,
|
33 |
+
"special": true
|
34 |
+
},
|
35 |
+
"32": {
|
36 |
+
"content": "<mask>",
|
37 |
+
"lstrip": false,
|
38 |
+
"normalized": false,
|
39 |
+
"rstrip": false,
|
40 |
+
"single_word": false,
|
41 |
+
"special": true
|
42 |
+
}
|
43 |
+
},
|
44 |
+
"additional_special_tokens": [],
|
45 |
+
"clean_up_tokenization_spaces": true,
|
46 |
+
"cls_token": "<cls>",
|
47 |
+
"eos_token": "<eos>",
|
48 |
+
"mask_token": "<mask>",
|
49 |
+
"model_max_length": 1024,
|
50 |
+
"pad_token": "<pad>",
|
51 |
+
"tokenizer_class": "EsmTokenizer",
|
52 |
+
"tokenizer_file": null,
|
53 |
+
"unk_token": "<unk>"
|
54 |
+
}
|
trainer_state.json
ADDED
@@ -0,0 +1,189 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
1 |
+
{
|
2 |
+
"best_metric": 0.3440490710592986,
|
3 |
+
"best_model_checkpoint": "esm2_t12_35M_qlora_binding_sites_2023-09-30_06-27-21/checkpoint-5289",
|
4 |
+
"epoch": 1.0,
|
5 |
+
"eval_steps": 500,
|
6 |
+
"global_step": 5289,
|
7 |
+
"is_hyper_param_search": false,
|
8 |
+
"is_local_process_zero": true,
|
9 |
+
"is_world_process_zero": true,
|
10 |
+
"log_history": [
|
11 |
+
{
|
12 |
+
"epoch": 0.04,
|
13 |
+
"learning_rate": 0.0003700117150420716,
|
14 |
+
"loss": 0.4265,
|
15 |
+
"step": 200
|
16 |
+
},
|
17 |
+
{
|
18 |
+
"epoch": 0.08,
|
19 |
+
"learning_rate": 0.0003695766709151845,
|
20 |
+
"loss": 0.2446,
|
21 |
+
"step": 400
|
22 |
+
},
|
23 |
+
{
|
24 |
+
"epoch": 0.11,
|
25 |
+
"learning_rate": 0.00036885235529645174,
|
26 |
+
"loss": 0.1964,
|
27 |
+
"step": 600
|
28 |
+
},
|
29 |
+
{
|
30 |
+
"epoch": 0.15,
|
31 |
+
"learning_rate": 0.00036783990382720894,
|
32 |
+
"loss": 0.1714,
|
33 |
+
"step": 800
|
34 |
+
},
|
35 |
+
{
|
36 |
+
"epoch": 0.19,
|
37 |
+
"learning_rate": 0.000366540903911771,
|
38 |
+
"loss": 0.1556,
|
39 |
+
"step": 1000
|
40 |
+
},
|
41 |
+
{
|
42 |
+
"epoch": 0.23,
|
43 |
+
"learning_rate": 0.00036495739222857005,
|
44 |
+
"loss": 0.1454,
|
45 |
+
"step": 1200
|
46 |
+
},
|
47 |
+
{
|
48 |
+
"epoch": 0.26,
|
49 |
+
"learning_rate": 0.00036309185153688393,
|
50 |
+
"loss": 0.1387,
|
51 |
+
"step": 1400
|
52 |
+
},
|
53 |
+
{
|
54 |
+
"epoch": 0.3,
|
55 |
+
"learning_rate": 0.0003609472067841633,
|
56 |
+
"loss": 0.133,
|
57 |
+
"step": 1600
|
58 |
+
},
|
59 |
+
{
|
60 |
+
"epoch": 0.34,
|
61 |
+
"learning_rate": 0.0003585268205200591,
|
62 |
+
"loss": 0.1289,
|
63 |
+
"step": 1800
|
64 |
+
},
|
65 |
+
{
|
66 |
+
"epoch": 0.38,
|
67 |
+
"learning_rate": 0.0003558344876243421,
|
68 |
+
"loss": 0.1228,
|
69 |
+
"step": 2000
|
70 |
+
},
|
71 |
+
{
|
72 |
+
"epoch": 0.42,
|
73 |
+
"learning_rate": 0.0003528744293569798,
|
74 |
+
"loss": 0.1208,
|
75 |
+
"step": 2200
|
76 |
+
},
|
77 |
+
{
|
78 |
+
"epoch": 0.45,
|
79 |
+
"learning_rate": 0.00034965128673969907,
|
80 |
+
"loss": 0.1167,
|
81 |
+
"step": 2400
|
82 |
+
},
|
83 |
+
{
|
84 |
+
"epoch": 0.49,
|
85 |
+
"learning_rate": 0.0003461701132794125,
|
86 |
+
"loss": 0.1131,
|
87 |
+
"step": 2600
|
88 |
+
},
|
89 |
+
{
|
90 |
+
"epoch": 0.53,
|
91 |
+
"learning_rate": 0.0003424363670449164,
|
92 |
+
"loss": 0.1113,
|
93 |
+
"step": 2800
|
94 |
+
},
|
95 |
+
{
|
96 |
+
"epoch": 0.57,
|
97 |
+
"learning_rate": 0.00033845590210928363,
|
98 |
+
"loss": 0.1088,
|
99 |
+
"step": 3000
|
100 |
+
},
|
101 |
+
{
|
102 |
+
"epoch": 0.61,
|
103 |
+
"learning_rate": 0.00033423495937136847,
|
104 |
+
"loss": 0.1081,
|
105 |
+
"step": 3200
|
106 |
+
},
|
107 |
+
{
|
108 |
+
"epoch": 0.64,
|
109 |
+
"learning_rate": 0.00032978015677081454,
|
110 |
+
"loss": 0.1054,
|
111 |
+
"step": 3400
|
112 |
+
},
|
113 |
+
{
|
114 |
+
"epoch": 0.68,
|
115 |
+
"learning_rate": 0.00032509847891190683,
|
116 |
+
"loss": 0.1029,
|
117 |
+
"step": 3600
|
118 |
+
},
|
119 |
+
{
|
120 |
+
"epoch": 0.72,
|
121 |
+
"learning_rate": 0.0003201972661125376,
|
122 |
+
"loss": 0.102,
|
123 |
+
"step": 3800
|
124 |
+
},
|
125 |
+
{
|
126 |
+
"epoch": 0.76,
|
127 |
+
"learning_rate": 0.0003150842028954544,
|
128 |
+
"loss": 0.0999,
|
129 |
+
"step": 4000
|
130 |
+
},
|
131 |
+
{
|
132 |
+
"epoch": 0.79,
|
133 |
+
"learning_rate": 0.0003097673059398367,
|
134 |
+
"loss": 0.098,
|
135 |
+
"step": 4200
|
136 |
+
},
|
137 |
+
{
|
138 |
+
"epoch": 0.83,
|
139 |
+
"learning_rate": 0.00030425491151208934,
|
140 |
+
"loss": 0.0972,
|
141 |
+
"step": 4400
|
142 |
+
},
|
143 |
+
{
|
144 |
+
"epoch": 0.87,
|
145 |
+
"learning_rate": 0.00029855566239556173,
|
146 |
+
"loss": 0.0968,
|
147 |
+
"step": 4600
|
148 |
+
},
|
149 |
+
{
|
150 |
+
"epoch": 0.91,
|
151 |
+
"learning_rate": 0.0002926784943396845,
|
152 |
+
"loss": 0.0947,
|
153 |
+
"step": 4800
|
154 |
+
},
|
155 |
+
{
|
156 |
+
"epoch": 0.95,
|
157 |
+
"learning_rate": 0.00028663262204976965,
|
158 |
+
"loss": 0.0933,
|
159 |
+
"step": 5000
|
160 |
+
},
|
161 |
+
{
|
162 |
+
"epoch": 0.98,
|
163 |
+
"learning_rate": 0.00028042752473944106,
|
164 |
+
"loss": 0.094,
|
165 |
+
"step": 5200
|
166 |
+
},
|
167 |
+
{
|
168 |
+
"epoch": 1.0,
|
169 |
+
"eval_accuracy": 0.9297529150299436,
|
170 |
+
"eval_auc": 0.8167222019799886,
|
171 |
+
"eval_f1": 0.3440490710592986,
|
172 |
+
"eval_loss": 0.6011912822723389,
|
173 |
+
"eval_mcc": 0.3730152153022164,
|
174 |
+
"eval_precision": 0.22835223718675476,
|
175 |
+
"eval_recall": 0.697386656717114,
|
176 |
+
"eval_runtime": 3756.1015,
|
177 |
+
"eval_samples_per_second": 144.201,
|
178 |
+
"eval_steps_per_second": 0.687,
|
179 |
+
"step": 5289
|
180 |
+
}
|
181 |
+
],
|
182 |
+
"logging_steps": 200,
|
183 |
+
"max_steps": 15867,
|
184 |
+
"num_train_epochs": 3,
|
185 |
+
"save_steps": 500,
|
186 |
+
"total_flos": 4.006517704836067e+17,
|
187 |
+
"trial_name": null,
|
188 |
+
"trial_params": null
|
189 |
+
}
|
training_args.bin
ADDED
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
1 |
+
version https://git-lfs.github.com/spec/v1
|
2 |
+
oid sha256:b915c4deb5ba56cacb3593b78264a7c9bd0e44e5e5af7a361d94ad20b8ca1c89
|
3 |
+
size 4155
|
vocab.txt
ADDED
@@ -0,0 +1,33 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
1 |
+
<cls>
|
2 |
+
<pad>
|
3 |
+
<eos>
|
4 |
+
<unk>
|
5 |
+
L
|
6 |
+
A
|
7 |
+
G
|
8 |
+
V
|
9 |
+
S
|
10 |
+
E
|
11 |
+
R
|
12 |
+
T
|
13 |
+
I
|
14 |
+
D
|
15 |
+
P
|
16 |
+
K
|
17 |
+
Q
|
18 |
+
N
|
19 |
+
F
|
20 |
+
Y
|
21 |
+
M
|
22 |
+
H
|
23 |
+
W
|
24 |
+
C
|
25 |
+
X
|
26 |
+
B
|
27 |
+
U
|
28 |
+
Z
|
29 |
+
O
|
30 |
+
.
|
31 |
+
-
|
32 |
+
<null_1>
|
33 |
+
<mask>
|