Functions
def	smart_int (string)

def	setup_hook ()

Variables
dictionary	name_abbreviations

string	default_name = 'sandbox'

string	default_structure = 'structures/contrived/valine.6.pdb'

dictionary	default_residues

	parser = argparse.ArgumentParser()

	default

	action

	dest

	type

	int

	nargs

	smart_int

	job = scripting.Job()

	arguments = parser.parse_args()

	residues

	pdb_string

string	command = 'git', 'rev-parse', '--show-toplevel'

	output = check_output(command, stderr=devnull)

	rosetta_path = output.strip()

	rosetta_subpath = lambda subpath: os.path.join(rosetta_path, subpath)

	background

	overwrite

	foreground

	hook

	dry_run

Function Documentation

◆ setup_hook()

def run_sidechain.setup_hook ( )

References rosetta_subpath.

◆ smart_int()

def run_sidechain.smart_int ( string )

 Convert the given string to an integer.  Metric suffixes, if they are 
present, will be properly translated.

References ObjexxFCL.get(), int, and smart_int.

Variable Documentation

◆ action

run_sidechain.action

◆ arguments

run_sidechain.arguments = parser.parse_args()

◆ background

run_sidechain.background

◆ command

run_sidechain.command = 'git', 'rev-parse', '--show-toplevel'

◆ default

run_sidechain.default

◆ default_name

string run_sidechain.default_name = 'sandbox'

◆ default_residues

dictionary run_sidechain.default_residues

Initial value:

 =  {
         'structures/contrived/valine.6.pdb': (3, 3),
         'structures/contrived/lysine.6.pdb': (3, 3),
         'structures/benchmark/1srp.pdb': (308, 319)
 }

◆ default_structure

string run_sidechain.default_structure = 'structures/contrived/valine.6.pdb'

◆ dest

run_sidechain.dest

◆ dry_run

run_sidechain.dry_run

◆ foreground

run_sidechain.foreground

◆ hook

run_sidechain.hook

◆ int

run_sidechain.int

Referenced by smart_int().

◆ job

run_sidechain.job = scripting.Job()

◆ name_abbreviations

dictionary run_sidechain.name_abbreviations

Initial value:

 =  {
         'sandbox':       'jobs/sandbox',
 }

◆ nargs

run_sidechain.nargs

◆ output

run_sidechain.output = check_output(command, stderr=devnull)

◆ overwrite

run_sidechain.overwrite

◆ parser

run_sidechain.parser = argparse.ArgumentParser()

◆ pdb_string

run_sidechain.pdb_string

◆ residues

run_sidechain.residues

◆ rosetta_path

run_sidechain.rosetta_path = output.strip()

◆ rosetta_subpath

run_sidechain.rosetta_subpath = lambda subpath: os.path.join(rosetta_path, subpath)

Referenced by setup_hook().

◆ smart_int

run_sidechain.smart_int