#!/bin/bash

WORK_DIR=/mnt/10tb/home/shadskiy/nt_pred/segment_borzoi
DATA_DIR=/mnt/10tb/home/shadskiy/ncbi_dataset/data/GCF_009914755.1
OUTPUT_DIR=/disk/10tb/home/shadskiy/nt
#_splice

CHROM=NC_060944.1
MODEL_LEN=196608
MODEL=InstaDeepAI/segment_enformer

CUDA_VISIBLE_DEVICES=0 python3 $WORK_DIR/nt_pred_borzoi_enformer.py  \
        --gff=$DATA_DIR/genomic.gff \
        --fasta=$DATA_DIR/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna \
        --transcripts_list=$DATA_DIR/mane_transcript_names.txt \
        --chrs=$CHROM \
        --model_len=$MODEL_LEN
