Download MASTER_config.json from leminhhung0101/RNA_model: direct link, hf CLI and curl.
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https://huggingface.co/leminhhung0101/RNA_model/resolve/main/MASTER_config.json
- Command line
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hf download hf://leminhhung0101/RNA_model/MASTER_config.json
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curl -L -o MASTER_config.json https://huggingface.co/leminhhung0101/RNA_model/resolve/main/MASTER_config.json
4.51 kB
| { | |
| "data": { | |
| "seed": 42, | |
| "profile": "t4x2", | |
| "train_max_len": 256, | |
| "eval_max_len": 850, | |
| "min_len": 24, | |
| "train_targets": 1000000000, | |
| "calibration_fraction": 0.15, | |
| "cluster_jaccard": 0.62, | |
| "cluster_len_ratio": 0.72, | |
| "msa_max_sequences": 96, | |
| "template_bank_size": 420, | |
| "kmer": 3, | |
| "d_node": 80, | |
| "d_pair": 48, | |
| "n_node_layers": 3, | |
| "n_pair_blocks": 4, | |
| "dropout": 0.1, | |
| "batch_size": 2, | |
| "val_batch_size": 1, | |
| "ablation_epochs": 4, | |
| "geometry_epochs": 10, | |
| "geometry_lr": 0.0002, | |
| "weight_decay": 0.01, | |
| "grad_clip": 1.0, | |
| "patience": 3, | |
| "num_workers": 2, | |
| "use_amp": true, | |
| "epoch_val_structures": 32, | |
| "contact_cutoff": 12.0, | |
| "bp_distance_cutoff": 15.0, | |
| "stacking_cutoff": 8.0, | |
| "w_dist": 1.0, | |
| "w_contact": 0.15, | |
| "w_bp": 0.2, | |
| "w_orient": 0.1, | |
| "w_stack": 0.08, | |
| "w_router_entropy": 0.002, | |
| "local_pair_boost": 1.25, | |
| "p_drop_msa": 0.15, | |
| "p_drop_template": 0.25, | |
| "p_drop_bp": 0.15, | |
| "p_sequence_only": 0.08, | |
| "flow_d_hidden": 80, | |
| "flow_layers": 4, | |
| "flow_epochs": 6, | |
| "flow_batch_size": 4, | |
| "flow_lr": 0.0001, | |
| "flow_patience": 2, | |
| "flow_distance_weight": 0.1, | |
| "flow_template_drop": 0.5, | |
| "flow_noise_scale": 16.0, | |
| "flow_steps": 14, | |
| "calib_candidates_aware": 5, | |
| "calib_candidates_denovo": 5, | |
| "final_candidates_aware": 8, | |
| "final_candidates_denovo": 8, | |
| "candidate_micro_batch": 4, | |
| "refine_steps": 8, | |
| "refine_lr": 0.03, | |
| "selector_epochs": 120, | |
| "selector_lr": 0.002, | |
| "selector_mc_dropout": 8, | |
| "uncertainty_lambda": 0.1, | |
| "diversity_lambda": 0.15, | |
| "n_top": 5, | |
| "hard_infer_len": 850, | |
| "out_dir": "/kaggle/working/EVIRNA_NOVA_CONTINUE_V12" | |
| }, | |
| "nova": { | |
| "profile": "t4", | |
| "seed": 42, | |
| "d_node": 160, | |
| "d_pair": 96, | |
| "d_msa": 64, | |
| "n_node_heads": 8, | |
| "n_pair_blocks": 8, | |
| "pair_transition_mult": 4, | |
| "triangle_rank": 24, | |
| "dropout": 0.1, | |
| "use_axial_attention": true, | |
| "axial_heads": 4, | |
| "axial_every": 3, | |
| "triangle_chunk": 32, | |
| "recycle_iters": 2, | |
| "gradient_checkpointing": true, | |
| "n_sources": 5, | |
| "router_hidden": 192, | |
| "router_temperature": 0.85, | |
| "evidential_router": true, | |
| "router_dropout": 0.1, | |
| "relpos_buckets": 64, | |
| "relpos_max": 1024, | |
| "n_dist_bins": 64, | |
| "dist_min": 2.0, | |
| "dist_max": 42.0, | |
| "contact_cutoff": 12.0, | |
| "stack_cutoff": 8.0, | |
| "flow_node_dim": 160, | |
| "flow_pair_dim": 64, | |
| "flow_blocks": 6, | |
| "flow_rbf_bins": 32, | |
| "flow_time_dim": 64, | |
| "flow_noise_scale": 18.0, | |
| "flow_train_template_prob": 0.5, | |
| "flow_template_noise": 3.0, | |
| "flow_steps_train": 1, | |
| "flow_steps_infer": 48, | |
| "flow_heun": true, | |
| "dynamic_flow_trust": true, | |
| "flow_coord_clip": 5.0, | |
| "n_conformers": 5, | |
| "p_drop_foundation": 0.08, | |
| "p_drop_msa": 0.15, | |
| "p_drop_template": 0.25, | |
| "p_drop_ss": 0.12, | |
| "w_distogram": 0.4, | |
| "w_distance": 0.3, | |
| "w_contact": 0.12, | |
| "w_bp": 0.2, | |
| "w_stack": 0.08, | |
| "w_orientation": 0.06, | |
| "w_pair_conf": 0.05, | |
| "w_flow": 1.0, | |
| "w_flow_distance": 0.15, | |
| "w_router_entropy": 0.002, | |
| "w_router_smooth": 0.002, | |
| "w_router_balance": 0.001, | |
| "w_uncertainty_calibration": 0.03, | |
| "w_teacher_distill": 0.1, | |
| "lr": 0.00015, | |
| "weight_decay": 0.05, | |
| "warmup_steps": 2000, | |
| "grad_clip": 1.0 | |
| }, | |
| "args": { | |
| "profile": "t4", | |
| "data_profile": "t4x2", | |
| "epochs": 0, | |
| "batch_size": 2, | |
| "grad_accum": 8, | |
| "val_batch_size": 1, | |
| "val_batches": 24, | |
| "train_targets": 0, | |
| "train_max_len": 256, | |
| "eval_max_len": 850, | |
| "crop_len": 256, | |
| "crop_stride": 192, | |
| "max_windows_per_target": 2, | |
| "rnet_extract_len": 192, | |
| "conformers": 5, | |
| "flow_steps": 48, | |
| "diversity_lambda": 0.1, | |
| "seed": 42, | |
| "workers": 2, | |
| "rnet_cache": null, | |
| "rnet_checkpoint": null, | |
| "rnet_single_dim": 128, | |
| "rnet_pair_dim": 16, | |
| "no_rnet_auto_download": false, | |
| "allow_internal_rna_proxy": false, | |
| "bp_cache": null, | |
| "resume": true, | |
| "resume_from": "/kaggle/input/datasets/leminhhung0101/arn3d-agent/EVIRNA_NOVA_CONTINUE", | |
| "resume_history": "/kaggle/input/datasets/leminhhung0101/arn3d-agent/EVIRNA_NOVA_CONTINUE/NOVA_history.csv", | |
| "skip_test": false, | |
| "single_gpu": false, | |
| "disable_gradient_checkpointing": false, | |
| "self_test": false, | |
| "eval_only": false, | |
| "out_dir": "/kaggle/working/EVIRNA_NOVA_CONTINUE_V12" | |
| } | |
| } |