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49 lines
1.3 KiB
Python
49 lines
1.3 KiB
Python
import argparse
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from datetime import date
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def add_data_args(parser: argparse.ArgumentParser):
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parser.add_argument(
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'uniref90_database_path', type=str,
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)
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parser.add_argument(
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'mgnify_database_path', type=str,
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)
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parser.add_argument(
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'pdb70_database_path', type=str,
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)
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parser.add_argument(
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'template_mmcif_dir', type=str,
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)
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parser.add_argument(
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'uniclust30_database_path', type=str,
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)
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parser.add_argument(
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'--bfd_database_path', type=str, default=None,
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)
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parser.add_argument(
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'--small_bfd_database_path', type=str, default=None
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)
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parser.add_argument(
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'--jackhmmer_binary_path', type=str, default='/usr/bin/jackhmmer'
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)
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parser.add_argument(
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'--hhblits_binary_path', type=str, default='/usr/bin/hhblits'
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)
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parser.add_argument(
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'--hhsearch_binary_path', type=str, default='/usr/bin/hhsearch'
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)
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parser.add_argument(
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'--kalign_binary_path', type=str, default='/usr/bin/kalign'
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)
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parser.add_argument(
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'--max_template_date', type=str,
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default=date.today().strftime("%Y-%m-%d"),
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)
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parser.add_argument(
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'--max_template_hits', type=int, default=20,
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)
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parser.add_argument(
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'--obsolete_pdbs_path', type=str, default=None
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)
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