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2026-05-07 21:37:27,661 INFO MainThread:18186 [wandb_setup.py:_flush():81] Current SDK version is 0.26.1
2026-05-07 21:37:27,661 INFO MainThread:18186 [wandb_setup.py:_flush():81] Configure stats pid to 18186
2026-05-07 21:37:27,661 INFO MainThread:18186 [wandb_setup.py:_flush():81] Loading settings from environment variables
2026-05-07 21:37:27,662 INFO MainThread:18186 [wandb_init.py:setup_run_log_directory():723] Logging user logs to /inspire/hdd/project/intelligentcreativedesign/dangshengqi-253114050252/z-anna/GENERanno-diffusion/wandb/offline-run-20260507_213727-01p1txez/logs/debug.log
2026-05-07 21:37:27,662 INFO MainThread:18186 [wandb_init.py:setup_run_log_directory():724] Logging internal logs to /inspire/hdd/project/intelligentcreativedesign/dangshengqi-253114050252/z-anna/GENERanno-diffusion/wandb/offline-run-20260507_213727-01p1txez/logs/debug-internal.log
2026-05-07 21:37:27,662 INFO MainThread:18186 [wandb_init.py:init():850] calling init triggers
2026-05-07 21:37:27,662 INFO MainThread:18186 [wandb_init.py:init():855] wandb.init called with sweep_config: {}
config: {'model_name': '/inspire/hdd/project/intelligentcreativedesign/dangshengqi-253114050252/z-anna/models/GENERanno-eukaryote-0.5b-base', 'dataset_dir': '/inspire/hdd/project/intelligentcreativedesign/dangshengqi-253114050252/z-anna/datas/DeepSTARR-enhancer-activity', 'output_dir': './checkpoints/deepstarr_discrete_diffusion', 'saved_model_dir': './saved_model/deepstarr_discrete_diffusion', 'sequence_col': 'sequence', 'label_col': 'label', 'score_mode': 'sum', 'low_quantile': 0.25, 'high_quantile': 0.75, 'conditioned': True, 'max_length': 256, 'num_train_epochs': 3.0, 'batch_size': 128, 'gradient_accumulation_steps': 1, 'learning_rate': 5e-05, 'weight_decay': 0.01, 'warmup_ratio': 0.03, 'logging_steps': 20, 'save_steps': 1000, 'eval_steps': 1000, 'save_total_limit': 3, 'mask_prob_min': 0.05, 'mask_prob_max': 0.95, 'num_diffusion_steps': 64, 'seed': 42, 'bf16': True, 'fp16': False, 'gradient_checkpointing': False, 'report_to': 'wandb', 'wandb_project': 'GENERanno-diffusion', 'run_name': 'deepstarr_masked_diffusion', 'resume': False, '_wandb': {}}
2026-05-07 21:37:27,662 INFO MainThread:18186 [wandb_init.py:init():898] starting backend
2026-05-07 21:37:27,919 INFO MainThread:18186 [wandb_init.py:init():913] sending inform_init request
2026-05-07 21:37:28,070 INFO MainThread:18186 [wandb_init.py:init():918] backend started and connected
2026-05-07 21:37:28,075 INFO MainThread:18186 [wandb_init.py:init():988] updated telemetry
2026-05-07 21:37:28,081 INFO MainThread:18186 [wandb_init.py:init():1011] communicating run to backend with 90.0 second timeout
2026-05-07 21:37:28,085 INFO MainThread:18186 [wandb_init.py:init():1056] starting run threads in backend
2026-05-07 21:37:28,266 INFO MainThread:18186 [wandb_run.py:_console_start():2554] atexit reg
2026-05-07 21:37:28,266 INFO MainThread:18186 [wandb_run.py:_redirect():2403] redirect: wrap_raw
2026-05-07 21:37:28,266 INFO MainThread:18186 [wandb_run.py:_redirect():2472] Wrapping output streams.
2026-05-07 21:37:28,266 INFO MainThread:18186 [wandb_run.py:_redirect():2495] Redirects installed.
2026-05-07 21:37:28,268 INFO MainThread:18186 [wandb_init.py:init():1094] run started, returning control to user process
2026-05-07 21:37:33,411 INFO MainThread:18186 [wandb_run.py:_config_callback():1415] config_cb None None {'vocab_size': 64, 'max_position_embeddings': 8192, 'hidden_size': 1280, 'intermediate_size': 3520, 'num_hidden_layers': 28, 'num_attention_heads': 16, 'num_key_value_heads': 4, 'hidden_act': 'silu', 'initializer_range': 0.02, 'rms_norm_eps': 1e-05, 'pretraining_tp': 1, 'rope_theta': 500000.0, 'rope_scaling': None, 'attention_bias': False, 'attention_dropout': 0.0, 'mlp_bias': False, 'return_dict': True, 'output_hidden_states': False, 'output_attentions': False, 'torchscript': False, 'torch_dtype': 'float32', 'use_bfloat16': False, 'tf_legacy_loss': False, 'pruned_heads': {}, 'tie_word_embeddings': False, 'chunk_size_feed_forward': 0, 'is_encoder_decoder': False, 'is_decoder': False, 'cross_attention_hidden_size': None, 'add_cross_attention': False, 'tie_encoder_decoder': False, 'max_length': 20, 'min_length': 0, 'do_sample': False, 'early_stopping': False, 'num_beams': 1, 'num_beam_groups': 1, 'diversity_penalty': 0.0, 'temperature': 1.0, 'top_k': 50, 'top_p': 1.0, 'typical_p': 1.0, 'repetition_penalty': 1.0, 'length_penalty': 1.0, 'no_repeat_ngram_size': 0, 'encoder_no_repeat_ngram_size': 0, 'bad_words_ids': None, 'num_return_sequences': 1, 'output_scores': False, 'return_dict_in_generate': False, 'forced_bos_token_id': None, 'forced_eos_token_id': None, 'remove_invalid_values': False, 'exponential_decay_length_penalty': None, 'suppress_tokens': None, 'begin_suppress_tokens': None, 'architectures': ['GenerannoForMaskedLM'], 'finetuning_task': None, 'id2label': {0: 'LABEL_0', 1: 'LABEL_1'}, 'label2id': {'LABEL_0': 0, 'LABEL_1': 1}, 'tokenizer_class': None, 'prefix': None, 'bos_token_id': 1, 'pad_token_id': 3, 'eos_token_id': 2, 'sep_token_id': None, 'decoder_start_token_id': None, 'task_specific_params': None, 'problem_type': None, '_name_or_path': '/inspire/hdd/project/intelligentcreativedesign/dangshengqi-253114050252/z-anna/models/GENERanno-eukaryote-0.5b-base', '_attn_implementation_autoset': True, 'transformers_version': '4.49.0', 'mask_token_id': 4, 'auto_map': {'AutoConfig': 'configuration_generanno.GenerannoConfig', 'AutoModel': 'modeling_generanno.GenerannoModel', 'AutoModelForMaskedLM': 'modeling_generanno.GenerannoForMaskedLM', 'AutoModelForSequenceClassification': 'modeling_generanno.GenerannoForSequenceClassification', 'AutoModelForTokenClassification': 'modeling_generanno.GenerannoForTokenClassification'}, 'model_type': 'generanno', 'dtype': 'float32', 'output_dir': './checkpoints/deepstarr_discrete_diffusion', 'overwrite_output_dir': False, 'do_train': False, 'do_eval': True, 'do_predict': False, 'eval_strategy': 'steps', 'prediction_loss_only': False, 'per_device_train_batch_size': 128, 'per_device_eval_batch_size': 128, 'per_gpu_train_batch_size': None, 'per_gpu_eval_batch_size': None, 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'jit_mode_eval': False, 'use_ipex': False, 'bf16': True, 'fp16': False, 'fp16_opt_level': 'O1', 'half_precision_backend': 'auto', 'bf16_full_eval': False, 'fp16_full_eval': False, 'tf32': None, 'local_rank': 0, 'ddp_backend': None, 'tpu_num_cores': None, 'tpu_metrics_debug': False, 'debug': [], 'dataloader_drop_last': False, 'eval_steps': 1000, 'dataloader_num_workers': 4, 'dataloader_prefetch_factor': None, 'past_index': -1, 'run_name': 'deepstarr_masked_diffusion', 'disable_tqdm': False, 'remove_unused_columns': False, 'label_names': None, 'load_best_model_at_end': True, 'metric_for_best_model': 'eval_loss', 'greater_is_better': False, 'ignore_data_skip': False, 'fsdp': [], 'fsdp_min_num_params': 0, 'fsdp_config': {'min_num_params': 0, 'xla': False, 'xla_fsdp_v2': False, 'xla_fsdp_grad_ckpt': False}, 'fsdp_transformer_layer_cls_to_wrap': None, 'accelerator_config': {'split_batches': False, 'dispatch_batches': None, 'even_batches': True, 'use_seedable_sampler': True, 'non_blocking': False, 'gradient_accumulation_kwargs': None}, 'deepspeed': None, 'label_smoothing_factor': 0.0, 'optim': 'adamw_torch', 'optim_args': None, 'adafactor': False, 'group_by_length': False, 'length_column_name': 'length', 'report_to': ['wandb'], 'ddp_find_unused_parameters': None, 'ddp_bucket_cap_mb': None, 'ddp_broadcast_buffers': None, 'dataloader_pin_memory': True, 'dataloader_persistent_workers': False, 'skip_memory_metrics': True, 'use_legacy_prediction_loop': False, 'push_to_hub': False, 'resume_from_checkpoint': None, 'hub_model_id': None, 'hub_strategy': 'every_save', 'hub_token': '<HUB_TOKEN>', 'hub_private_repo': None, 'hub_always_push': False, 'gradient_checkpointing': False, 'gradient_checkpointing_kwargs': None, 'include_inputs_for_metrics': False, 'include_for_metrics': [], 'eval_do_concat_batches': True, 'fp16_backend': 'auto', 'evaluation_strategy': None, 'push_to_hub_model_id': None, 'push_to_hub_organization': None, 'push_to_hub_token': '<PUSH_TO_HUB_TOKEN>', 'mp_parameters': '', 'auto_find_batch_size': False, 'full_determinism': False, 'torchdynamo': None, 'ray_scope': 'last', 'ddp_timeout': 1800, 'torch_compile': False, 'torch_compile_backend': None, 'torch_compile_mode': None, 'dispatch_batches': None, 'split_batches': None, 'include_tokens_per_second': False, 'include_num_input_tokens_seen': False, 'neftune_noise_alpha': None, 'optim_target_modules': None, 'batch_eval_metrics': False, 'eval_on_start': False, 'use_liger_kernel': False, 'eval_use_gather_object': False, 'average_tokens_across_devices': False}
2026-05-07 21:37:33,419 INFO MainThread:18186 [wandb_config.py:__setitem__():155] [no run ID] config set model/num_parameters = 493395200 - <bound method Run._config_callback of <wandb.sdk.wandb_run.Run object at 0x7f6df6a77450>>
2026-05-07 21:37:33,419 INFO MainThread:18186 [wandb_run.py:_config_callback():1415] config_cb model/num_parameters 493395200 None
2026-05-07 23:09:23,569 INFO wandb-AsyncioManager-main:18186 [service_client.py:_forward_responses():134] Reached EOF.
2026-05-07 23:09:23,577 INFO wandb-AsyncioManager-main:18186 [mailbox.py:close():155] Closing mailbox, abandoning 0 handles.