|
wandb_version: 1 |
|
|
|
_wandb: |
|
desc: null |
|
value: |
|
python_version: 3.11.4 |
|
cli_version: 0.17.9 |
|
framework: huggingface |
|
huggingface_version: 4.43.4 |
|
is_jupyter_run: true |
|
is_kaggle_kernel: false |
|
start_time: 1726572446 |
|
t: |
|
1: |
|
- 1 |
|
- 5 |
|
- 11 |
|
- 41 |
|
- 49 |
|
- 51 |
|
- 53 |
|
- 55 |
|
- 71 |
|
- 98 |
|
- 100 |
|
- 105 |
|
2: |
|
- 1 |
|
- 5 |
|
- 11 |
|
- 41 |
|
- 49 |
|
- 51 |
|
- 53 |
|
- 55 |
|
- 71 |
|
- 98 |
|
- 100 |
|
- 105 |
|
3: |
|
- 7 |
|
- 19 |
|
- 23 |
|
- 62 |
|
- 66 |
|
4: 3.11.4 |
|
5: 0.17.9 |
|
6: 4.43.4 |
|
8: |
|
- 1 |
|
- 5 |
|
9: |
|
1: transformers_trainer |
|
13: linux-x86_64 |
|
m: |
|
- 1: train/global_step |
|
6: |
|
- 3 |
|
- 1: train/loss |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: train/grad_norm |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: train/learning_rate |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: train/epoch |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/loss |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/f1 |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/precision |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/recall |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/accuracy |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/runtime |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/samples_per_second |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: eval/steps_per_second |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_loss |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_f1 |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_precision |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_recall |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_accuracy |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_runtime |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_samples_per_second |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.eval_steps_per_second |
|
5: 1 |
|
6: |
|
- 1 |
|
- 1: test_results.epoch |
|
5: 1 |
|
6: |
|
- 1 |
|
return_dict: |
|
desc: null |
|
value: true |
|
output_hidden_states: |
|
desc: null |
|
value: false |
|
output_attentions: |
|
desc: null |
|
value: false |
|
torchscript: |
|
desc: null |
|
value: false |
|
torch_dtype: |
|
desc: null |
|
value: null |
|
use_bfloat16: |
|
desc: null |
|
value: false |
|
tf_legacy_loss: |
|
desc: null |
|
value: false |
|
pruned_heads: |
|
desc: null |
|
value: {} |
|
tie_word_embeddings: |
|
desc: null |
|
value: true |
|
chunk_size_feed_forward: |
|
desc: null |
|
value: 0 |
|
is_encoder_decoder: |
|
desc: null |
|
value: false |
|
is_decoder: |
|
desc: null |
|
value: false |
|
cross_attention_hidden_size: |
|
desc: null |
|
value: null |
|
add_cross_attention: |
|
desc: null |
|
value: false |
|
tie_encoder_decoder: |
|
desc: null |
|
value: false |
|
max_length: |
|
desc: null |
|
value: 20 |
|
min_length: |
|
desc: null |
|
value: 0 |
|
do_sample: |
|
desc: null |
|
value: false |
|
early_stopping: |
|
desc: null |
|
value: false |
|
num_beams: |
|
desc: null |
|
value: 1 |
|
num_beam_groups: |
|
desc: null |
|
value: 1 |
|
diversity_penalty: |
|
desc: null |
|
value: 0.0 |
|
temperature: |
|
desc: null |
|
value: 1.0 |
|
top_k: |
|
desc: null |
|
value: 50 |
|
top_p: |
|
desc: null |
|
value: 1.0 |
|
typical_p: |
|
desc: null |
|
value: 1.0 |
|
repetition_penalty: |
|
desc: null |
|
value: 1.0 |
|
length_penalty: |
|
desc: null |
|
value: 1.0 |
|
no_repeat_ngram_size: |
|
desc: null |
|
value: 0 |
|
encoder_no_repeat_ngram_size: |
|
desc: null |
|
value: 0 |
|
bad_words_ids: |
|
desc: null |
|
value: null |
|
num_return_sequences: |
|
desc: null |
|
value: 1 |
|
output_scores: |
|
desc: null |
|
value: false |
|
return_dict_in_generate: |
|
desc: null |
|
value: false |
|
forced_bos_token_id: |
|
desc: null |
|
value: null |
|
forced_eos_token_id: |
|
desc: null |
|
value: null |
|
remove_invalid_values: |
|
desc: null |
|
value: false |
|
exponential_decay_length_penalty: |
|
desc: null |
|
value: null |
|
suppress_tokens: |
|
desc: null |
|
value: null |
|
begin_suppress_tokens: |
|
desc: null |
|
value: null |
|
architectures: |
|
desc: null |
|
value: |
|
- BertForMaskedLM |
|
finetuning_task: |
|
desc: null |
|
value: null |
|
id2label: |
|
desc: null |
|
value: |
|
'0': O |
|
'1': B-DNA |
|
'2': I-DNA |
|
'3': B-protein |
|
'4': I-protein |
|
'5': B-cell_type |
|
'6': I-cell_type |
|
'7': B-cell_line |
|
'8': I-cell_line |
|
'9': B-RNA |
|
'10': I-RNA |
|
label2id: |
|
desc: null |
|
value: |
|
O: 0 |
|
B-DNA: 1 |
|
I-DNA: 2 |
|
B-protein: 3 |
|
I-protein: 4 |
|
B-cell_type: 5 |
|
I-cell_type: 6 |
|
B-cell_line: 7 |
|
I-cell_line: 8 |
|
B-RNA: 9 |
|
I-RNA: 10 |
|
tokenizer_class: |
|
desc: null |
|
value: null |
|
prefix: |
|
desc: null |
|
value: null |
|
bos_token_id: |
|
desc: null |
|
value: null |
|
pad_token_id: |
|
desc: null |
|
value: 0 |
|
eos_token_id: |
|
desc: null |
|
value: null |
|
sep_token_id: |
|
desc: null |
|
value: null |
|
decoder_start_token_id: |
|
desc: null |
|
value: null |
|
task_specific_params: |
|
desc: null |
|
value: null |
|
problem_type: |
|
desc: null |
|
value: null |
|
_name_or_path: |
|
desc: null |
|
value: bioformers/bioformer-16L |
|
transformers_version: |
|
desc: null |
|
value: 4.43.4 |
|
model_type: |
|
desc: null |
|
value: bert |
|
vocab_size: |
|
desc: null |
|
value: 32768 |
|
hidden_size: |
|
desc: null |
|
value: 384 |
|
num_hidden_layers: |
|
desc: null |
|
value: 16 |
|
num_attention_heads: |
|
desc: null |
|
value: 6 |
|
hidden_act: |
|
desc: null |
|
value: gelu |
|
intermediate_size: |
|
desc: null |
|
value: 1536 |
|
hidden_dropout_prob: |
|
desc: null |
|
value: 0.1 |
|
attention_probs_dropout_prob: |
|
desc: null |
|
value: 0.1 |
|
max_position_embeddings: |
|
desc: null |
|
value: 1024 |
|
type_vocab_size: |
|
desc: null |
|
value: 2 |
|
initializer_range: |
|
desc: null |
|
value: 0.02 |
|
layer_norm_eps: |
|
desc: null |
|
value: 1.0e-12 |
|
position_embedding_type: |
|
desc: null |
|
value: absolute |
|
use_cache: |
|
desc: null |
|
value: true |
|
classifier_dropout: |
|
desc: null |
|
value: null |
|
output_dir: |
|
desc: null |
|
value: /nfs/production/literature/amina-mardiyyah/model_save_dir/cl_ct_custom_model |
|
overwrite_output_dir: |
|
desc: null |
|
value: false |
|
do_train: |
|
desc: null |
|
value: false |
|
do_eval: |
|
desc: null |
|
value: true |
|
do_predict: |
|
desc: null |
|
value: false |
|
eval_strategy: |
|
desc: null |
|
value: epoch |
|
prediction_loss_only: |
|
desc: null |
|
value: false |
|
per_device_train_batch_size: |
|
desc: null |
|
value: 16 |
|
per_device_eval_batch_size: |
|
desc: null |
|
value: 8 |
|
per_gpu_train_batch_size: |
|
desc: null |
|
value: null |
|
per_gpu_eval_batch_size: |
|
desc: null |
|
value: null |
|
gradient_accumulation_steps: |
|
desc: null |
|
value: 4 |
|
eval_accumulation_steps: |
|
desc: null |
|
value: null |
|
eval_delay: |
|
desc: null |
|
value: 0 |
|
torch_empty_cache_steps: |
|
desc: null |
|
value: null |
|
learning_rate: |
|
desc: null |
|
value: 2.0e-05 |
|
weight_decay: |
|
desc: null |
|
value: 0.01 |
|
adam_beta1: |
|
desc: null |
|
value: 0.9 |
|
adam_beta2: |
|
desc: null |
|
value: 0.999 |
|
adam_epsilon: |
|
desc: null |
|
value: 1.0e-08 |
|
max_grad_norm: |
|
desc: null |
|
value: 1.0 |
|
num_train_epochs: |
|
desc: null |
|
value: 10 |
|
max_steps: |
|
desc: null |
|
value: -1 |
|
lr_scheduler_type: |
|
desc: null |
|
value: linear |
|
lr_scheduler_kwargs: |
|
desc: null |
|
value: {} |
|
warmup_ratio: |
|
desc: null |
|
value: 0.0 |
|
warmup_steps: |
|
desc: null |
|
value: 0 |
|
log_level: |
|
desc: null |
|
value: passive |
|
log_level_replica: |
|
desc: null |
|
value: warning |
|
log_on_each_node: |
|
desc: null |
|
value: true |
|
logging_dir: |
|
desc: null |
|
value: /nfs/production/literature/amina-mardiyyah/model_save_dir/cl_ct_custom_model/logs |
|
logging_strategy: |
|
desc: null |
|
value: epoch |
|
logging_first_step: |
|
desc: null |
|
value: false |
|
logging_steps: |
|
desc: null |
|
value: 500 |
|
logging_nan_inf_filter: |
|
desc: null |
|
value: true |
|
save_strategy: |
|
desc: null |
|
value: epoch |
|
save_steps: |
|
desc: null |
|
value: 500 |
|
save_total_limit: |
|
desc: null |
|
value: 2 |
|
save_safetensors: |
|
desc: null |
|
value: true |
|
save_on_each_node: |
|
desc: null |
|
value: false |
|
save_only_model: |
|
desc: null |
|
value: false |
|
restore_callback_states_from_checkpoint: |
|
desc: null |
|
value: false |
|
no_cuda: |
|
desc: null |
|
value: false |
|
use_cpu: |
|
desc: null |
|
value: false |
|
use_mps_device: |
|
desc: null |
|
value: false |
|
seed: |
|
desc: null |
|
value: 3407 |
|
data_seed: |
|
desc: null |
|
value: null |
|
jit_mode_eval: |
|
desc: null |
|
value: false |
|
use_ipex: |
|
desc: null |
|
value: false |
|
bf16: |
|
desc: null |
|
value: false |
|
fp16: |
|
desc: null |
|
value: true |
|
fp16_opt_level: |
|
desc: null |
|
value: O1 |
|
half_precision_backend: |
|
desc: null |
|
value: auto |
|
bf16_full_eval: |
|
desc: null |
|
value: false |
|
fp16_full_eval: |
|
desc: null |
|
value: false |
|
tf32: |
|
desc: null |
|
value: null |
|
local_rank: |
|
desc: null |
|
value: 0 |
|
ddp_backend: |
|
desc: null |
|
value: null |
|
tpu_num_cores: |
|
desc: null |
|
value: null |
|
tpu_metrics_debug: |
|
desc: null |
|
value: false |
|
debug: |
|
desc: null |
|
value: [] |
|
dataloader_drop_last: |
|
desc: null |
|
value: false |
|
eval_steps: |
|
desc: null |
|
value: null |
|
dataloader_num_workers: |
|
desc: null |
|
value: 0 |
|
dataloader_prefetch_factor: |
|
desc: null |
|
value: null |
|
past_index: |
|
desc: null |
|
value: -1 |
|
run_name: |
|
desc: null |
|
value: /nfs/production/literature/amina-mardiyyah/model_save_dir/cl_ct_custom_model |
|
disable_tqdm: |
|
desc: null |
|
value: false |
|
remove_unused_columns: |
|
desc: null |
|
value: true |
|
label_names: |
|
desc: null |
|
value: null |
|
load_best_model_at_end: |
|
desc: null |
|
value: true |
|
metric_for_best_model: |
|
desc: null |
|
value: eval_f1 |
|
greater_is_better: |
|
desc: null |
|
value: true |
|
ignore_data_skip: |
|
desc: null |
|
value: false |
|
fsdp: |
|
desc: null |
|
value: [] |
|
fsdp_min_num_params: |
|
desc: null |
|
value: 0 |
|
fsdp_config: |
|
desc: null |
|
value: |
|
min_num_params: 0 |
|
xla: false |
|
xla_fsdp_v2: false |
|
xla_fsdp_grad_ckpt: false |
|
fsdp_transformer_layer_cls_to_wrap: |
|
desc: null |
|
value: null |
|
accelerator_config: |
|
desc: null |
|
value: |
|
split_batches: false |
|
dispatch_batches: null |
|
even_batches: true |
|
use_seedable_sampler: true |
|
non_blocking: false |
|
gradient_accumulation_kwargs: null |
|
deepspeed: |
|
desc: null |
|
value: null |
|
label_smoothing_factor: |
|
desc: null |
|
value: 0.0 |
|
optim: |
|
desc: null |
|
value: adamw_torch |
|
optim_args: |
|
desc: null |
|
value: null |
|
adafactor: |
|
desc: null |
|
value: false |
|
group_by_length: |
|
desc: null |
|
value: true |
|
length_column_name: |
|
desc: null |
|
value: length |
|
report_to: |
|
desc: null |
|
value: |
|
- wandb |
|
ddp_find_unused_parameters: |
|
desc: null |
|
value: null |
|
ddp_bucket_cap_mb: |
|
desc: null |
|
value: null |
|
ddp_broadcast_buffers: |
|
desc: null |
|
value: null |
|
dataloader_pin_memory: |
|
desc: null |
|
value: true |
|
dataloader_persistent_workers: |
|
desc: null |
|
value: false |
|
skip_memory_metrics: |
|
desc: null |
|
value: true |
|
use_legacy_prediction_loop: |
|
desc: null |
|
value: false |
|
push_to_hub: |
|
desc: null |
|
value: false |
|
resume_from_checkpoint: |
|
desc: null |
|
value: null |
|
hub_model_id: |
|
desc: null |
|
value: null |
|
hub_strategy: |
|
desc: null |
|
value: every_save |
|
hub_token: |
|
desc: null |
|
value: <HUB_TOKEN> |
|
hub_private_repo: |
|
desc: null |
|
value: false |
|
hub_always_push: |
|
desc: null |
|
value: false |
|
gradient_checkpointing: |
|
desc: null |
|
value: false |
|
gradient_checkpointing_kwargs: |
|
desc: null |
|
value: null |
|
include_inputs_for_metrics: |
|
desc: null |
|
value: false |
|
eval_do_concat_batches: |
|
desc: null |
|
value: true |
|
fp16_backend: |
|
desc: null |
|
value: auto |
|
evaluation_strategy: |
|
desc: null |
|
value: null |
|
push_to_hub_model_id: |
|
desc: null |
|
value: null |
|
push_to_hub_organization: |
|
desc: null |
|
value: null |
|
push_to_hub_token: |
|
desc: null |
|
value: <PUSH_TO_HUB_TOKEN> |
|
mp_parameters: |
|
desc: null |
|
value: '' |
|
auto_find_batch_size: |
|
desc: null |
|
value: false |
|
full_determinism: |
|
desc: null |
|
value: false |
|
torchdynamo: |
|
desc: null |
|
value: null |
|
ray_scope: |
|
desc: null |
|
value: last |
|
ddp_timeout: |
|
desc: null |
|
value: 1800 |
|
torch_compile: |
|
desc: null |
|
value: false |
|
torch_compile_backend: |
|
desc: null |
|
value: null |
|
torch_compile_mode: |
|
desc: null |
|
value: null |
|
dispatch_batches: |
|
desc: null |
|
value: null |
|
split_batches: |
|
desc: null |
|
value: null |
|
include_tokens_per_second: |
|
desc: null |
|
value: false |
|
include_num_input_tokens_seen: |
|
desc: null |
|
value: false |
|
neftune_noise_alpha: |
|
desc: null |
|
value: null |
|
optim_target_modules: |
|
desc: null |
|
value: null |
|
batch_eval_metrics: |
|
desc: null |
|
value: false |
|
eval_on_start: |
|
desc: null |
|
value: false |
|
eval_use_gather_object: |
|
desc: null |
|
value: false |
|
model/num_parameters: |
|
desc: null |
|
value: 41373323 |
|
|