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extract.py
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extract.py
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"""extract one or more signatures"""
from sourmash.cli.utils import (add_moltype_args, add_ksize_arg,
add_picklist_args, add_pattern_args)
def subparser(subparsers):
subparser = subparsers.add_parser('extract')
subparser.add_argument('signatures', nargs='*')
subparser.add_argument(
'-q', '--quiet', action='store_true',
help='suppress non-error output'
)
subparser.add_argument(
'-o', '--output', metavar='FILE',
help='output signature to this file (default stdout)',
default='-',
)
subparser.add_argument(
'--md5', default=None,
help='select signatures whose md5 contains this substring'
)
subparser.add_argument(
'--name', default=None,
help='select signatures whose name contains this substring'
)
subparser.add_argument(
'-f', '--force', action='store_true',
help='try to load all files as signatures'
)
subparser.add_argument(
'--from-file',
help='a text file containing a list of files to load signatures from'
)
add_ksize_arg(subparser, 31)
add_moltype_args(subparser)
add_pattern_args(subparser)
add_picklist_args(subparser)
def main(args):
import sourmash
return sourmash.sig.__main__.extract(args)