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6eec9b2 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 | #!/bin/bash
export CUDA_VISIBLE_DEVICES="0"
ROOT="$(cd "$(dirname "$0")/.." && pwd)"
export PYTHONPATH="${ROOT}/src:${PYTHONPATH}"
# Edit these paths before running
MODEL_PATH=/path/to/checkpoint
DNA_PATH=/path/to/dna
TFCR_PATH=/path/to/tf
EXP_PATH=/path/to/exp
DNA_TOKENIZER=/path/to/dna_tokenizer.json
DNA_CONFIG=/path/to/dna_config.json
TRANS_TOKENIZER=/path/to/trans_tokenizer/vocab.txt
EXP_TOKENIZER=/path/to/exp_tokenizer/vocab.txt
EXP_CONFIG=/path/to/exp_config.json
python -m torch.distributed.launch --nproc_per_node=1 --master_port=18567 "${ROOT}/src/main.py" \
--dna_tokenizer_name=$DNA_TOKENIZER \
--dna_config_name=$DNA_CONFIG \
--trans_tokenizer_name=$TRANS_TOKENIZER \
--exp_tokenizer_name=$EXP_TOKENIZER \
--exp_config_name=$EXP_CONFIG \
--trans_model_name_or_path $MODEL_PATH \
--cis_model_name_or_path $MODEL_PATH \
--task_name genepred \
--do_predict \
--tfcr_dir $TFCR_PATH \
--exp_dir $EXP_PATH \
--dna_dir $DNA_PATH \
--max_seq_length 2112 \
--max_dna_seq_length 71680 \
--per_gpu_pred_batch_size=1 \
--output_dir $MODEL_PATH \
--predict_dir $EXP_PATH \
--save_name predict \
--n_process 8
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