def set_options(*args, **kargs):
'''
Set the specific options for this script
@return: parsed ArgumentParser
'''
parser = ArgumentParser(parents = [basic_parser()],
conflict_handler='resolve')
# Setting forced alpha-helix --> each entry is a tuple; repetitions store several tuples
parser.add_argument("--ahelix", dest="ahelix", action="append", type=int, nargs=2,
help="Regions forced to be alpha helix", metavar="A_ini A_end")
# Setting forced beta-strand --> each entry is a tuple; repetitions store several tuples
parser.add_argument("--bstrand", dest="bstrand", action="append", type=int, nargs=2,
help="Regions forced to be abeta strand", metavar="S_ini S_end")
# Fixing distances between CA --> each entry is a tuple; repetitions store several tuples
parser.add_argument("--distance", dest="distance", action="append", nargs=3,
type=float, metavar="CA1 CA2 Dist",
help="Fixed distance between two CA, specify as: CA1 CA2 Distance")
parser.add_argument("--models", dest="numMod", action="store",
type=int, metavar="MOD_NUM", default=5,
help="Number of models to be done (min: 1) [Default: 5]")
parser.add_argument("--optimize", dest="optimize", action="store_true",
default=False, help="Activate optimization")
return parser.parse_args()
def set_options(*args, **kargs):
'''
Set the specific options for this script
@return: parsed ArgumentParser
'''
parser = ArgumentParser(parents=[basic_parser()],
conflict_handler='resolve')
# Setting forced alpha-helix --> each entry is a tuple; repetitions store several tuples
parser.add_argument("--ahelix",
dest="ahelix",
action="append",
type=int,
nargs=2,
help="Regions forced to be alpha helix",
metavar="A_ini A_end")
# Setting forced beta-strand --> each entry is a tuple; repetitions store several tuples
parser.add_argument("--bstrand",
dest="bstrand",
action="append",
type=int,
nargs=2,
help="Regions forced to be abeta strand",
metavar="S_ini S_end")
# Fixing distances between CA --> each entry is a tuple; repetitions store several tuples
parser.add_argument(
"--distance",
dest="distance",
action="append",
nargs=3,
type=float,
metavar="CA1 CA2 Dist",
help="Fixed distance between two CA, specify as: CA1 CA2 Distance")
parser.add_argument(
"--models",
dest="numMod",
action="store",
type=int,
metavar="MOD_NUM",
default=5,
help="Number of models to be done (min: 1) [Default: 5]")
parser.add_argument("--optimize",
dest="optimize",
action="store_true",
default=False,
help="Activate optimization")
return parser.parse_args()
def set_options(*args, **kargs):
'''
Set the specific options for this script
@return: parsed ArgumentParser
'''
parser = ArgumentParser(parents = [basic_parser()],
conflict_handler='resolve')
parser.add_argument("--models", dest="numMod", action="store",
type=int, metavar="MOD_NUM", default=5,
help="Number of models to be done (min: 1) [Default: 5]")
parser.add_argument("--optimize", dest="optimize", action="store_true",
default=False, help="Activate optimization")
return parser.parse_args()
def set_options(*args, **kargs):
'''
Set the specific options for this script
@return: parsed ArgumentParser
'''
parser = ArgumentParser(parents = [basic_parser()],
conflict_handler='resolve')
parser.add_argument("--models", dest="numMod", action="store",
type=int, metavar="MOD_NUM", default=5,
help="Number of models to be done (min: 1) [Default: 5]")
parser.add_argument("--optimize", dest="optimize", action="store_true",
default=False, help="Activate optimization")
return parser.parse_args()
def set_options(*args, **kargs):
'''
Set the specific options for this script
@return: parsed ArgumentParser
'''
parser = ArgumentParser(parents=[basic_parser()],
conflict_handler='resolve')
parser.add_argument(
"--models",
dest="numMod",
action="store",
type=int,
metavar="MOD_NUM",
default=5,
help="Number of models to be done (min: 1) [Default: 5]")
parser.add_argument(
"--loops",
dest="numLoop",
action="store",
type=int,
metavar="LOOP_NUM",
default=5,
help="Number of loop to be done per model (min: 1) [Default: 5]")
parser.add_argument("--constraints",
dest="constraints",
action="store",
type=str,
metavar="CONST",
default=None,
help="Constraint file")
parser.add_argument("--dopeloop",
dest="dopel",
action="store_true",
default=False,
help="Optimize loops with DOPE")
parser.add_argument("--optimize",
dest="optimize",
action="store_true",
default=False,
help="Activate optimization")
return parser.parse_args()
def set_options(*args, **kargs):
'''
Set the specific options for this script
@return: parsed ArgumentParser
'''
parser = ArgumentParser(parents = [basic_parser()],
conflict_handler='resolve')
parser.add_argument("--models", dest="numMod", action="store",
type=int, metavar="MOD_NUM", default=5,
help="Number of models to be done (min: 1) [Default: 5]")
parser.add_argument("--loops", dest="numLoop", action="store",
type=int, metavar="LOOP_NUM", default=5,
help="Number of loop to be done per model (min: 1) [Default: 5]")
parser.add_argument("--constraints", dest="constraints", action="store",
type=str, metavar="CONST", default=None,
help="Constraint file")
parser.add_argument("--dopeloop", dest="dopel", action="store_true",
default=False, help="Optimize loops with DOPE")
parser.add_argument("--optimize", dest="optimize", action="store_true",
default=False, help="Activate optimization")
return parser.parse_args()