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model/low_energy/checkpoints/config.yaml ADDED
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+ batch_size: 1500
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+ epochs: 5000
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+ eval_every_n_epochs: 5
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+ smilesmodel_finetune: False
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+ smilesmodel_finetune_path: "/public/home/hpc212307003/molclr_cnn/nist_w2v/pretrained_gin/checkpoints/model.pth"
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+ fine_tune_from: "/home/xieting/graph_transformer_esa/runs/Oct13_09-58-09_ubuntu/"
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+ log_every_n_steps: 2
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+ learning_rate: 1e-05
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+ weight_decay: 0.0001
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+ fp16_precision: True
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+ truncation: True
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+
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+ model_config:
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+ num_layer: 5
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+ emb_dim: 300
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+ feat_dim: 512
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+ drop_ratio: 0.3
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+ pool : mean
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+ spec_embed_dim: 256
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+ dropout: 0.1
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+ layers: 3
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+ embed_dim: 256
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+
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+ dataset:
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+ s: 1
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+ num_workers: 0
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+ valid_size: 0.1
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+ ms2_file: "/home/xieting/cl_data/hcd3_0.01test/train_hcd_posh_10.mgf"
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+ smi_file: "/home/xieting/cl_data/hcd3_0.01test/train_hcd_posh_10_smi.npy"
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+
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+ loss:
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+ temperature: 0.1
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+ use_cosine_similarity: True
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+ alpha_weight: 0.75
model/low_energy/checkpoints/model.pth ADDED
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+ version https://git-lfs.github.com/spec/v1
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+ oid sha256:7fd4397b415acb07cb772fa990d8498500fb70b4e213218503fb1d201f4bcc9a
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+ size 21327230