PREcst Namespace Reference

Functions
def	ratio_func (x, R2, ratio)
def	fit (linewidth, ratio)

Variables
	MW = float(sys.argv[2])
int	kDa = MW / 1000
float	tauc = 0.6e-9 * kDa
float	K = 1.23e-32
int	larmor = 500e3
	fname = sys.argv[1]
	FILE = open(fname, "r")
	param = line.split(" ")
	labeledres = int(param[0])
	peak = int(param[0])
	linewidth = float(param[1])
	Iox = float(param[2])
	Ired = float(param[3])
	ratio = Iox/Ired
def	PRE = fit( linewidth, ratio )
int	Rconst = 4*tauc+((3*tauc)/(1+larmor**2 * tauc**2))
tuple	r = (K/PRE*Rconst)**(float(1)/6)*10**8

Function Documentation

fit()

def PREcst.fit	(		linewidth,
			ratio
	)

References utility::options::OptionKeys::options.exit, if(), and ObjexxFCL.len().

Referenced by dbscan_adaptive_kernel_density_bb_dependent_rotlib.main(), dbscan_cluster_rotamer.main(), and write_cluster_frags().

ratio_func()

def PREcst.ratio_func	(		x,
			R2,
			ratio
	)

Variable Documentation

FILE

PREcst.FILE = open(fname, "r")

Referenced by basic.get_usage_from_procfilesystem(), main(), output_PCA(), read_PCAfile(), svm_load_model(), and svm_save_model().

fname

PREcst.fname = sys.argv[1]

Referenced by MinToolMover.apply(), ScoreMover.apply(), ConstraintToolMover.apply(), RDCToolMover.apply(), HolesTrainingDataMover.apply(), RosettaHolesMover.apply(), balls_pdb(), ConstraintConfig.ConstraintConfig(), MatchSet.cross(), MatchSet.cross_homodimer(), utility::io::FileContentsMap.delete_file_contents(), dock(), doit_refine(), dump_data(), TCDock.dump_pdb(), PoseWrap.dump_pdb(), MatchAlignInfo.dump_pdb(), dump_water_grid_file(), dumpsym(), dumpsym2(), dumpsym6(), fname2pdbcode(), basic::database.full_name(), get_centered_pose(), get_csts_from_pose(), get_out_tag(), numeric::expression_parser::ExpressionCreator.handle_function_expression(), numeric::expression_parser::BooleanExpressionCreator.handle_function_expression(), harvest_motifs(), utility::io::FileContentsMap.has_file_contents(), utility::io::FileContentsMap.has_read_limit_for_file(), ik_his_clamp(), utility::io::FileContentsMap.increment_nread_limit(), basic::resource_manager::ResourceManager.initialize_from_commandline(), TNM.load_normal_modes(), basic::resource_manager::locator::FileSystemResourceLocator.locate_resource_stream(), main(), mydumppdb(), utility::io::FileContentsMap.nread_limit_for_file(), utility::io::FileContentsMap.nreads_for_file(), output_packstat(), output_packstat_pdb(), SphereSample.pdb_from_level(), InterfaceDDGBindJobInputter.pose_from_job(), posewrap_from_command_line(), DisulfEposDatabase.read_data_file(), read_ddg_file(), readFile(), GetURLHandler.ReportResult(), GetURLHandler.ReportResultAndDie(), run(), run_3bpy(), run_diiron_glu(), run_m8(), run_tyr_his(), run_zn2his(), utility::io::FileContentsMap.set_file_contents(), utility::io::FileContentsMap.set_nread_limit_for_file(), DomainAssemblerNDocker.setup_cen_domains(), sicdock_thread_num(), test(), test_suck_res(), test_vs_dots(), TNM.TNM(), and MatchSet.write_to_file().

Iox

PREcst.Iox = float(param[2])

Ired

PREcst.Ired = float(param[3])

K

float PREcst.K = 1.23e-32

Referenced by CrystDesign.CrystDesign(), find_neighbors_directional(), get_interface_residues(), CrystDesign.get_interface_residues(), get_neighbor_residues(), CrystDesign.get_neighbor_residues(), basic::options.get_option(), main(), and basic::options.set_option().

kDa

int PREcst.kDa = MW / 1000

labeledres

PREcst.labeledres = int(param[0])

larmor

int PREcst.larmor = 500e3

linewidth

PREcst.linewidth = float(param[1])

Referenced by utility.encode6bit().

MW

PREcst.MW = float(sys.argv[2])

param

PREcst.param = line.split(" ")

Referenced by utility::pointer.dynamic_pointer_cast(), Kernel.k_function(), ONE_CLASS_Q.ONE_CLASS_Q(), numeric::interpolation::Histogram< X, Y >.set_params(), solve_c_svc(), solve_epsilon_svr(), solve_nu_svc(), solve_nu_svr(), solve_one_class(), SVC_Q.SVC_Q(), svm_binary_svc_probability(), svm_check_parameter(), svm_cross_validation(), svm_destroy_param(), svm_load_model(), svm_save_model(), svm_svr_probability(), svm_train(), svm_train_one(), and SVR_Q.SVR_Q().

peak

PREcst.peak = int(param[0])

PRE

def PREcst.PRE = fit( linewidth, ratio )

Referenced by calc_B_values(), and check_interface_symmetry().

r

tuple PREcst.r = (K/PRE*Rconst)**(float(1)/6)*10**8

ratio

float PREcst.ratio = Iox/Ired

Referenced by containment_and_clash_checks(), numeric::nls.lm_lmdif(), and basic::svd::SVD_Solver.pythag().

Rconst

int PREcst.Rconst = 4*tauc+((3*tauc)/(1+larmor**2 * tauc**2))

tauc

float PREcst.tauc = 0.6e-9 * kDa