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[BioGPT-Large-QA] run inference.sh error #93

Open ZON-ZONG-MIN opened 1 year ago

ZON-ZONG-MIN commented 1 year ago

I follow BioGPT/examples/QA-PubMedQA/README.md to Test PubMedQA accuracy. This is my colab: https://colab.research.google.com/drive/1BQmO1c0s4E6ZqpB0Tfv7wocMhmJm2AKx?usp=sharing

And I get the following result:

Begin inferencing /content/BioGPT/examples/QA-PubMedQA/../../data/PubMedQA/raw/pqal_qcl_ansis_test.tok.bpe.x using ../../checkpoints/QA-PubMedQA-BioGPT/checkpoint.pt
2023-04-10 10:39:21.923294: I tensorflow/core/platform/cpu_feature_guard.cc:182] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations.
To enable the following instructions: AVX2 FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags.
2023-04-10 10:39:22.794855: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT
2023-04-10 10:39:24 | INFO | fairseq.file_utils | loading archive file ../../checkpoints/QA-PubMedQA-BioGPT
2023-04-10 10:39:24 | INFO | fairseq.file_utils | loading archive file /content/BioGPT/examples/QA-PubMedQA/../../data/PubMedQA/pqal_qcl_ansis-bin
2023-04-10 10:39:31 | INFO | src.language_modeling_prompt | dictionary: 42384 types
2023-04-10 10:39:36 | INFO | fairseq.models.fairseq_model | {'_name': None, 'common': {'_name': None, 'no_progress_bar': False, 'log_interval': 100, 'log_format': None, 'log_file': None, 'aim_repo': None, 'aim_run_hash': None, 'tensorboard_logdir': None, 'wandb_project': None, 'azureml_logging': False, 'seed': 1, 'cpu': False, 'tpu': False, 'bf16': False, 'memory_efficient_bf16': False, 'fp16': True, 'memory_efficient_fp16': True, 'fp16_no_flatten_grads': False, 'fp16_init_scale': 128, 'fp16_scale_window': None, 'fp16_scale_tolerance': 0.0, 'on_cpu_convert_precision': False, 'min_loss_scale': 0.0001, 'threshold_loss_scale': None, 'amp': False, 'amp_batch_retries': 2, 'amp_init_scale': 128, 'amp_scale_window': None, 'user_dir': '../../src', 'empty_cache_freq': 0, 'all_gather_list_size': 16384, 'model_parallel_size': 1, 'quantization_config_path': None, 'profile': False, 'reset_logging': False, 'suppress_crashes': False, 'use_plasma_view': False, 'plasma_path': '/tmp/plasma'}, 'common_eval': {'_name': None, 'path': None, 'post_process': None, 'quiet': False, 'model_overrides': '{}', 'results_path': None}, 'distributed_training': {'_name': None, 'distributed_world_size': 1, 'distributed_num_procs': 1, 'distributed_rank': 0, 'distributed_backend': 'nccl', 'distributed_init_method': None, 'distributed_port': -1, 'device_id': 0, 'distributed_no_spawn': False, 'ddp_backend': 'pytorch_ddp', 'ddp_comm_hook': 'none', 'bucket_cap_mb': 25, 'fix_batches_to_gpus': False, 'find_unused_parameters': False, 'gradient_as_bucket_view': False, 'fast_stat_sync': False, 'heartbeat_timeout': -1, 'broadcast_buffers': False, 'slowmo_momentum': None, 'slowmo_base_algorithm': 'localsgd', 'localsgd_frequency': 3, 'nprocs_per_node': 1, 'pipeline_model_parallel': False, 'pipeline_balance': None, 'pipeline_devices': None, 'pipeline_chunks': 0, 'pipeline_encoder_balance': None, 'pipeline_encoder_devices': None, 'pipeline_decoder_balance': None, 'pipeline_decoder_devices': None, 'pipeline_checkpoint': 'never', 'zero_sharding': 'none', 'fp16': True, 'memory_efficient_fp16': True, 'tpu': False, 'no_reshard_after_forward': False, 'fp32_reduce_scatter': False, 'cpu_offload': False, 'use_sharded_state': False, 'not_fsdp_flatten_parameters': False}, 'dataset': {'_name': None, 'num_workers': 1, 'skip_invalid_size_inputs_valid_test': False, 'max_tokens': 12000, 'batch_size': None, 'required_batch_size_multiple': 8, 'required_seq_len_multiple': 1, 'dataset_impl': None, 'data_buffer_size': 10, 'train_subset': 'train', 'valid_subset': 'valid', 'combine_valid_subsets': None, 'ignore_unused_valid_subsets': False, 'validate_interval': 1, 'validate_interval_updates': 0, 'validate_after_updates': 0, 'fixed_validation_seed': None, 'disable_validation': False, 'max_tokens_valid': 4096, 'batch_size_valid': None, 'max_valid_steps': None, 'curriculum': 0, 'gen_subset': 'test', 'num_shards': 1, 'shard_id': 0, 'grouped_shuffling': False, 'update_epoch_batch_itr': False, 'update_ordered_indices_seed': False}, 'optimization': {'_name': None, 'max_epoch': 10, 'max_update': 0, 'stop_time_hours': 0.0, 'clip_norm': 0.0, 'sentence_avg': False, 'update_freq': [1], 'lr': [0.0001], 'stop_min_lr': -1.0, 'use_bmuf': False, 'skip_remainder_batch': False}, 'checkpoint': {'_name': None, 'save_dir': '../../checkpoints/QA-PubMedQA-BioGPT-ReasoningRequest', 'restore_file': 'checkpoint_last.pt', 'continue_once': None, 'finetune_from_model': '../../checkpoints/QA-PubMedQA-BioGPT-ReasoningRequest-finalstage/checkpoint10.pt', 'reset_dataloader': False, 'reset_lr_scheduler': False, 'reset_meters': False, 'reset_optimizer': False, 'optimizer_overrides': '{}', 'save_interval': 1, 'save_interval_updates': 0, 'keep_interval_updates': -1, 'keep_interval_updates_pattern': -1, 'keep_last_epochs': -1, 'keep_best_checkpoints': -1, 'no_save': False, 'no_epoch_checkpoints': False, 'no_last_checkpoints': False, 'no_save_optimizer_state': False, 'best_checkpoint_metric': 'loss', 'maximize_best_checkpoint_metric': False, 'patience': -1, 'checkpoint_suffix': '', 'checkpoint_shard_count': 1, 'load_checkpoint_on_all_dp_ranks': False, 'write_checkpoints_asynchronously': False, 'model_parallel_size': 1, 'save_after_epoch': 0, 'no_best_checkpoints': True}, 'bmuf': {'_name': None, 'block_lr': 1.0, 'block_momentum': 0.875, 'global_sync_iter': 50, 'warmup_iterations': 500, 'use_nbm': False, 'average_sync': False, 'distributed_world_size': 1}, 'generation': {'_name': None, 'beam': 5, 'nbest': 1, 'max_len_a': 0.0, 'max_len_b': 1024, 'min_len': 1, 'match_source_len': False, 'unnormalized': False, 'no_early_stop': False, 'no_beamable_mm': False, 'lenpen': 1.0, 'unkpen': 0.0, 'replace_unk': None, 'sacrebleu': False, 'score_reference': False, 'prefix_size': 0, 'no_repeat_ngram_size': 0, 'sampling': False, 'sampling_topk': -1, 'sampling_topp': -1.0, 'constraints': None, 'temperature': 1.0, 'diverse_beam_groups': -1, 'diverse_beam_strength': 0.5, 'diversity_rate': -1.0, 'print_alignment': None, 'print_step': False, 'lm_path': None, 'lm_weight': 0.0, 'iter_decode_eos_penalty': 0.0, 'iter_decode_max_iter': 10, 'iter_decode_force_max_iter': False, 'iter_decode_with_beam': 1, 'iter_decode_with_external_reranker': False, 'retain_iter_history': False, 'retain_dropout': False, 'retain_dropout_modules': None, 'decoding_format': None, 'no_seed_provided': False, 'eos_token': None}, 'eval_lm': {'_name': None, 'output_word_probs': False, 'output_word_stats': False, 'context_window': 0, 'softmax_batch': 9223372036854775807}, 'interactive': {'_name': None, 'buffer_size': 0, 'input': '-'}, 'model': {'_name': 'transformer_lm_prompt_biogpt', 'activation_fn': 'gelu', 'dropout': 0.1, 'attention_dropout': 0.1, 'activation_dropout': 0.0, 'relu_dropout': 0.0, 'decoder_embed_dim': 1024, 'decoder_output_dim': 1024, 'decoder_input_dim': 1024, 'decoder_ffn_embed_dim': 4096, 'decoder_layers': 24, 'decoder_attention_heads': 16, 'decoder_normalize_before': True, 'no_decoder_final_norm': False, 'adaptive_softmax_cutoff': None, 'adaptive_softmax_dropout': 0.0, 'adaptive_softmax_factor': 4.0, 'no_token_positional_embeddings': False, 'share_decoder_input_output_embed': True, 'character_embeddings': False, 'character_filters': '[(1, 64), (2, 128), (3, 192), (4, 256), (5, 256), (6, 256), (7, 256)]', 'character_embedding_dim': 4, 'char_embedder_highway_layers': 2, 'adaptive_input': False, 'adaptive_input_factor': 4.0, 'adaptive_input_cutoff': None, 'tie_adaptive_weights': False, 'tie_adaptive_proj': False, 'decoder_learned_pos': True, 'layernorm_embedding': False, 'no_scale_embedding': False, 'checkpoint_activations': False, 'offload_activations': False, 'decoder_layerdrop': 0.0, 'decoder_layers_to_keep': None, 'quant_noise_pq': 0.0, 'quant_noise_pq_block_size': 8, 'quant_noise_scalar': 0.0, 'min_params_to_wrap': 100000000, 'base_layers': 0, 'base_sublayers': 1, 'base_shuffle': 0, 'scale_fc': False, 'scale_attn': False, 'scale_heads': False, 'scale_resids': False, 'decoder_xformers_att_config': None, 'add_bos_token': False, 'tokens_per_sample': 1024, 'max_target_positions': 1024, 'tpu': False}, 'task': {'_name': 'language_modeling_prompt', 'data': '/content/BioGPT/examples/QA-PubMedQA/../../data/PubMedQA/pqal_qcl_ansis-bin', 'sample_break_mode': 'none', 'tokens_per_sample': 1024, 'output_dictionary_size': -1, 'self_target': False, 'future_target': False, 'past_target': False, 'add_bos_token': False, 'max_target_positions': 1024, 'shorten_method': 'none', 'shorten_data_split_list': '', 'pad_to_fixed_length': False, 'pad_to_fixed_bsz': False, 'seed': 1, 'batch_size': None, 'batch_size_valid': None, 'dataset_impl': None, 'data_buffer_size': 10, 'tpu': False, 'use_plasma_view': False, 'plasma_path': '/tmp/plasma', 'source_lang': None, 'target_lang': None, 'max_source_positions': 900, 'manual_prompt': None, 'learned_prompt': 9, 'learned_prompt_pattern': 'learned', 'prefix': False, 'sep_token': '<seqsep>'}, 'criterion': {'_name': 'cross_entropy', 'sentence_avg': False}, 'optimizer': {'_name': 'adam', 'adam_betas': '(0.9, 0.98)', 'adam_eps': 1e-08, 'weight_decay': 0.01, 'use_old_adam': False, 'fp16_adam_stats': False, 'tpu': False, 'lr': [0.0001]}, 'lr_scheduler': {'_name': 'inverse_sqrt', 'warmup_updates': 100, 'warmup_init_lr': 1e-07, 'lr': [0.0001]}, 'scoring': {'_name': 'bleu', 'pad': 1, 'eos': 2, 'unk': 3}, 'bpe': None, 'tokenizer': None, 'ema': {'_name': None, 'store_ema': False, 'ema_decay': 0.9999, 'ema_start_update': 0, 'ema_seed_model': None, 'ema_update_freq': 1, 'ema_fp32': False}}
{'_name': None, 'common': {'_name': None, 'no_progress_bar': False, 'log_interval': 100, 'log_format': None, 'log_file': None, 'aim_repo': None, 'aim_run_hash': None, 'tensorboard_logdir': None, 'wandb_project': None, 'azureml_logging': False, 'seed': 1, 'cpu': False, 'tpu': False, 'bf16': False, 'memory_efficient_bf16': False, 'fp16': True, 'memory_efficient_fp16': True, 'fp16_no_flatten_grads': False, 'fp16_init_scale': 128, 'fp16_scale_window': None, 'fp16_scale_tolerance': 0.0, 'on_cpu_convert_precision': False, 'min_loss_scale': 0.0001, 'threshold_loss_scale': None, 'amp': False, 'amp_batch_retries': 2, 'amp_init_scale': 128, 'amp_scale_window': None, 'user_dir': '../../src', 'empty_cache_freq': 0, 'all_gather_list_size': 16384, 'model_parallel_size': 1, 'quantization_config_path': None, 'profile': False, 'reset_logging': False, 'suppress_crashes': False, 'use_plasma_view': False, 'plasma_path': '/tmp/plasma'}, 'common_eval': {'_name': None, 'path': None, 'post_process': None, 'quiet': False, 'model_overrides': '{}', 'results_path': None}, 'distributed_training': {'_name': None, 'distributed_world_size': 1, 'distributed_num_procs': 1, 'distributed_rank': 0, 'distributed_backend': 'nccl', 'distributed_init_method': None, 'distributed_port': -1, 'device_id': 0, 'distributed_no_spawn': False, 'ddp_backend': 'pytorch_ddp', 'ddp_comm_hook': 'none', 'bucket_cap_mb': 25, 'fix_batches_to_gpus': False, 'find_unused_parameters': False, 'gradient_as_bucket_view': False, 'fast_stat_sync': False, 'heartbeat_timeout': -1, 'broadcast_buffers': False, 'slowmo_momentum': None, 'slowmo_base_algorithm': 'localsgd', 'localsgd_frequency': 3, 'nprocs_per_node': 1, 'pipeline_model_parallel': False, 'pipeline_balance': None, 'pipeline_devices': None, 'pipeline_chunks': 0, 'pipeline_encoder_balance': None, 'pipeline_encoder_devices': None, 'pipeline_decoder_balance': None, 'pipeline_decoder_devices': None, 'pipeline_checkpoint': 'never', 'zero_sharding': 'none', 'fp16': True, 'memory_efficient_fp16': True, 'tpu': False, 'no_reshard_after_forward': False, 'fp32_reduce_scatter': False, 'cpu_offload': False, 'use_sharded_state': False, 'not_fsdp_flatten_parameters': False}, 'dataset': {'_name': None, 'num_workers': 1, 'skip_invalid_size_inputs_valid_test': False, 'max_tokens': 12000, 'batch_size': None, 'required_batch_size_multiple': 8, 'required_seq_len_multiple': 1, 'dataset_impl': None, 'data_buffer_size': 10, 'train_subset': 'train', 'valid_subset': 'valid', 'combine_valid_subsets': None, 'ignore_unused_valid_subsets': False, 'validate_interval': 1, 'validate_interval_updates': 0, 'validate_after_updates': 0, 'fixed_validation_seed': None, 'disable_validation': False, 'max_tokens_valid': 4096, 'batch_size_valid': None, 'max_valid_steps': None, 'curriculum': 0, 'gen_subset': 'test', 'num_shards': 1, 'shard_id': 0, 'grouped_shuffling': False, 'update_epoch_batch_itr': False, 'update_ordered_indices_seed': False}, 'optimization': {'_name': None, 'max_epoch': 10, 'max_update': 0, 'stop_time_hours': 0.0, 'clip_norm': 0.0, 'sentence_avg': False, 'update_freq': [1], 'lr': [0.0001], 'stop_min_lr': -1.0, 'use_bmuf': False, 'skip_remainder_batch': False}, 'checkpoint': {'_name': None, 'save_dir': '../../checkpoints/QA-PubMedQA-BioGPT-ReasoningRequest', 'restore_file': 'checkpoint_last.pt', 'continue_once': None, 'finetune_from_model': '../../checkpoints/QA-PubMedQA-BioGPT-ReasoningRequest-finalstage/checkpoint10.pt', 'reset_dataloader': False, 'reset_lr_scheduler': False, 'reset_meters': False, 'reset_optimizer': False, 'optimizer_overrides': '{}', 'save_interval': 1, 'save_interval_updates': 0, 'keep_interval_updates': -1, 'keep_interval_updates_pattern': -1, 'keep_last_epochs': -1, 'keep_best_checkpoints': -1, 'no_save': False, 'no_epoch_checkpoints': False, 'no_last_checkpoints': False, 'no_save_optimizer_state': False, 'best_checkpoint_metric': 'loss', 'maximize_best_checkpoint_metric': False, 'patience': -1, 'checkpoint_suffix': '', 'checkpoint_shard_count': 1, 'load_checkpoint_on_all_dp_ranks': False, 'write_checkpoints_asynchronously': False, 'model_parallel_size': 1, 'save_after_epoch': 0, 'no_best_checkpoints': True}, 'bmuf': {'_name': None, 'block_lr': 1.0, 'block_momentum': 0.875, 'global_sync_iter': 50, 'warmup_iterations': 500, 'use_nbm': False, 'average_sync': False, 'distributed_world_size': 1}, 'generation': {'_name': None, 'beam': 5, 'nbest': 1, 'max_len_a': 0.0, 'max_len_b': 1024, 'min_len': 1, 'match_source_len': False, 'unnormalized': False, 'no_early_stop': False, 'no_beamable_mm': False, 'lenpen': 1.0, 'unkpen': 0.0, 'replace_unk': None, 'sacrebleu': False, 'score_reference': False, 'prefix_size': 0, 'no_repeat_ngram_size': 0, 'sampling': False, 'sampling_topk': -1, 'sampling_topp': -1.0, 'constraints': None, 'temperature': 1.0, 'diverse_beam_groups': -1, 'diverse_beam_strength': 0.5, 'diversity_rate': -1.0, 'print_alignment': None, 'print_step': False, 'lm_path': None, 'lm_weight': 0.0, 'iter_decode_eos_penalty': 0.0, 'iter_decode_max_iter': 10, 'iter_decode_force_max_iter': False, 'iter_decode_with_beam': 1, 'iter_decode_with_external_reranker': False, 'retain_iter_history': False, 'retain_dropout': False, 'retain_dropout_modules': None, 'decoding_format': None, 'no_seed_provided': False, 'eos_token': None}, 'eval_lm': {'_name': None, 'output_word_probs': False, 'output_word_stats': False, 'context_window': 0, 'softmax_batch': 9223372036854775807}, 'interactive': {'_name': None, 'buffer_size': 0, 'input': '-'}, 'model': {'_name': 'transformer_lm_prompt_biogpt', 'activation_fn': 'gelu', 'dropout': 0.1, 'attention_dropout': 0.1, 'activation_dropout': 0.0, 'relu_dropout': 0.0, 'decoder_embed_dim': 1024, 'decoder_output_dim': 1024, 'decoder_input_dim': 1024, 'decoder_ffn_embed_dim': 4096, 'decoder_layers': 24, 'decoder_attention_heads': 16, 'decoder_normalize_before': True, 'no_decoder_final_norm': False, 'adaptive_softmax_cutoff': None, 'adaptive_softmax_dropout': 0.0, 'adaptive_softmax_factor': 4.0, 'no_token_positional_embeddings': False, 'share_decoder_input_output_embed': True, 'character_embeddings': False, 'character_filters': '[(1, 64), (2, 128), (3, 192), (4, 256), (5, 256), (6, 256), (7, 256)]', 'character_embedding_dim': 4, 'char_embedder_highway_layers': 2, 'adaptive_input': False, 'adaptive_input_factor': 4.0, 'adaptive_input_cutoff': None, 'tie_adaptive_weights': False, 'tie_adaptive_proj': False, 'decoder_learned_pos': True, 'layernorm_embedding': False, 'no_scale_embedding': False, 'checkpoint_activations': False, 'offload_activations': False, 'decoder_layerdrop': 0.0, 'decoder_layers_to_keep': None, 'quant_noise_pq': 0.0, 'quant_noise_pq_block_size': 8, 'quant_noise_scalar': 0.0, 'min_params_to_wrap': 100000000, 'base_layers': 0, 'base_sublayers': 1, 'base_shuffle': 0, 'scale_fc': False, 'scale_attn': False, 'scale_heads': False, 'scale_resids': False, 'decoder_xformers_att_config': None, 'add_bos_token': False, 'tokens_per_sample': 1024, 'max_target_positions': 1024, 'tpu': False}, 'task': {'_name': 'language_modeling_prompt', 'data': '/content/BioGPT/examples/QA-PubMedQA/../../data/PubMedQA/pqal_qcl_ansis-bin', 'sample_break_mode': 'none', 'tokens_per_sample': 1024, 'output_dictionary_size': -1, 'self_target': False, 'future_target': False, 'past_target': False, 'add_bos_token': False, 'max_target_positions': 1024, 'shorten_method': 'none', 'shorten_data_split_list': '', 'pad_to_fixed_length': False, 'pad_to_fixed_bsz': False, 'seed': 1, 'batch_size': None, 'batch_size_valid': None, 'dataset_impl': None, 'data_buffer_size': 10, 'tpu': False, 'use_plasma_view': False, 'plasma_path': '/tmp/plasma', 'source_lang': None, 'target_lang': None, 'max_source_positions': 900, 'manual_prompt': None, 'learned_prompt': 9, 'learned_prompt_pattern': 'learned', 'prefix': False, 'sep_token': '<seqsep>'}, 'criterion': {'_name': 'cross_entropy', 'sentence_avg': False}, 'optimizer': {'_name': 'adam', 'adam_betas': '(0.9, 0.98)', 'adam_eps': 1e-08, 'weight_decay': 0.01, 'use_old_adam': False, 'fp16_adam_stats': False, 'tpu': False, 'lr': [0.0001]}, 'lr_scheduler': {'_name': 'inverse_sqrt', 'warmup_updates': 100, 'warmup_init_lr': 1e-07, 'lr': [0.0001]}, 'scoring': {'_name': 'bleu', 'pad': 1, 'eos': 2, 'unk': 3}, 'bpe': None, 'tokenizer': None, 'ema': {'_name': None, 'store_ema': False, 'ema_decay': 0.9999, 'ema_start_update': 0, 'ema_seed_model': None, 'ema_update_freq': 1, 'ema_fp32': False}}
Converting to float 16
Tokenizer Version 1.1
Language: en
Number of threads: 1
failed = 0, total = 500

====File:  generate_checkpoint.pt.detok.extracted.txt
0.782

When I run preprocess_large.sh and infer_large.sh , preporcess_large.sh can generate biogpt-large-pqal_qcl_ansis-bin but infer_large.sh have some error

Begin inferencing /content/BioGPT/examples/QA-PubMedQA/../../data/PubMedQA/raw/biogpt-large-pqal_qcl_ansis_test.tok.bpe.x using ../../checkpoints/QA-PubMedQA-BioGPT-Large/checkpoint.pt
2023-04-10 13:08:04.006038: I tensorflow/core/platform/cpu_feature_guard.cc:182] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations.
To enable the following instructions: AVX2 FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags.
2023-04-10 13:08:06.273501: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT
2023-04-10 13:08:11 | INFO | fairseq.file_utils | loading archive file ../../checkpoints/QA-PubMedQA-BioGPT-Large
2023-04-10 13:08:11 | INFO | fairseq.file_utils | loading archive file /content/BioGPT/examples/QA-PubMedQA/../../data/PubMedQA/biogpt-large-pqal_qcl_ansis-bin
infer_large.sh: line 21: 11640 Killed                  python ../../inference.py --data_dir=${DATA_DIR} --model_dir=${MODEL_DIR} --model_file=${MODEL} --src_file=${INPUT_FILE} --output_file=${OUTPUT_FILE}
sed: can't read ../../checkpoints/QA-PubMedQA-BioGPT-Large/generate_checkpoint.pt: No such file or directory
infer_large.sh: line 26: ../../checkpoints/QA-PubMedQA-BioGPT-Large/generate_checkpoint.pt: No such file or directory
Traceback (most recent call last):
  File "/content/BioGPT/examples/QA-PubMedQA/postprocess.py", line 37, in <module>
    with open(out_file, "r", encoding="utf8") as fr:
FileNotFoundError: [Errno 2] No such file or directory: '../../checkpoints/QA-PubMedQA-BioGPT-Large/generate_checkpoint.pt.detok'
Traceback (most recent call last):
  File "/content/BioGPT/examples/QA-PubMedQA/hard_match_evaluation.py", line 42, in <module>
    main()
  File "/content/BioGPT/examples/QA-PubMedQA/hard_match_evaluation.py", line 20, in main
    with open(pred_file) as reader:
FileNotFoundError: [Errno 2] No such file or directory: '../../checkpoints/QA-PubMedQA-BioGPT-Large/generate_checkpoint.pt.detok.extracted.txt'

I'm not sure where the error is

rajkumar-surana commented 1 year ago

Have you checked if this file exist "../../checkpoints/QA-PubMedQA-BioGPT-Large/generate_checkpoint.pt: No such file or directory" from the directory where you are running? Basically it seems like either you need to change directory of your weights file .. as your current code is not able to find it.