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49 lines
1.6 KiB
Python
49 lines
1.6 KiB
Python
from alphapulldown.utils import *
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import io
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import warnings
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import subprocess
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from absl import app
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import os
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from alphapulldown.utils.modelling_setup import get_run_alphafold
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from alphapulldown.utils.create_combinations import process_files
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import argparse
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from os import makedirs
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from typing import Dict, List
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from os.path import exists, join
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from alphapulldown.folding_backend import FoldingBackendManager
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from alphapulldown.objects import MultimericObject, MonomericObject
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from alphapulldown.utils.modelling_setup import create_interactors
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from absl import logging
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logging.set_verbosity(logging.INFO)
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import tempfile
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import os
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import subprocess
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import numpy as np
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from alphafold.data.tools import jackhmmer
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from alphafold.data import parsers
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from alphafold.data import pipeline_multimer
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from alphafold.data import pipeline
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from alphafold.data import msa_pairing
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from alphafold.data import feature_processing
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from pathlib import Path as plPath
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from typing import List, Dict
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from colabfold.batch import unserialize_msa, get_msa_and_templates, msa_to_str, build_monomer_feature
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from alphapulldown.utils.multimeric_template_utils import (extract_multimeric_template_features_for_single_chain,
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prepare_multimeric_template_meta_info)
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from alphapulldown.utils.file_handling import temp_fasta_file
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import json
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import os
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import pickle,gzip
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import time
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from absl import logging
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from alphafold.common import protein
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from alphafold.common import residue_constants
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from alphafold.relax import relax
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import numpy as np
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import jax.numpy as jnp
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from alphapulldown.utils.modelling_setup import get_run_alphafold
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