Are you sure you want to delete this task? Once this task is deleted, it cannot be recovered.
You can not select more than 25 topics
Topics must start with a chinese character,a letter or number, can include dashes ('-') and can be up to 35 characters long.
xufana7
a722b61911
|
1 year ago | |
|---|---|---|
| data | 1 year ago | |
| denovo | 1 year ago | |
| sample_data | 1 year ago | |
| 01.py | 1 year ago | |
| README.md | 1 year ago | |
| casanovo.py | 1 year ago | |
| command_env.sh | 1 year ago | |
| config.yaml | 1 year ago | |
| config_large.yaml | 1 year ago | |
| config_small.yaml | 1 year ago | |
| config_small_t5.yaml | 1 year ago | |
| config_test.yaml | 1 year ago | |
| data.mgf | 1 year ago | |
| exp_record.txt | 1 year ago | |
| get_t5.py | 1 year ago | |
| log.log | 1 year ago | |
| loss.pdf | 1 year ago | |
| output.log | 1 year ago | |
| plot_logs.ipynb | 1 year ago | |
| read_data.ipynb | 1 year ago | |
| utils.py | 1 year ago | |
| version.py | 1 year ago | |
README.md
Casanovo_py38
train
conda activate casanovo_env1
# original
python casanovo.py --mode train --peak_path "/userhome/xufan/peptide_data/zhipu_data/casanovo/train_data/*" --peak_path_val "/userhome/xufan/peptide_data/zhipu_data/casanovo/val_data/*" --output exp_original/log --config config.yaml
# small pretrained model
python casanovo.py --mode train --pretrained "/userhome/xufan/peptide_data/zhipu_data/moco_mz/output_s1m1g1_6/checkpoint_0079_final.pth.tar" --peak_path "/userhome/xufan/peptide_data/zhipu_data/casanovo/train_data/*" --peak_path_val "/userhome/xufan/peptide_data/zhipu_data/casanovo/val_data/*" --output exp_small/log --config config_small.yaml
# large pretrained model
python casanovo.py --mode train --pretrained "/userhome/xufan/peptide_data/zhipu_data/moco_mz/output_alls1m1g1_1/checkpoint_0001_final.pth.tar" --peak_path "/userhome/xufan/peptide_data/zhipu_data/casanovo/train_data/*" --peak_path_val "/userhome/xufan/peptide_data/zhipu_data/casanovo/val_data/*" --output exp_large/log --config config_large.yaml
--train_only only train without eval
--pretrained pretrained model path
--encoder_lr encoder learning rate. If None, encoder_lr=learning_rate in config file.
No Description
Jupyter Notebook Python Shell Text
