make_symmdef_file_denovo Namespace Reference

Variables
int	length = -1
tuple	pos = argv.index('-symm_type')
list	symm_type_name = argv[pos+1]
list	nsub = argv[pos+1]
int	subsystem_size = 0
string	slide_type = ""
string	slide_criteria_type = ""
string	slide_order = ""
string	slide_criteria_val = ""
tuple	subunits = int(nsub)
list	interfaces = []
int	num_interfaces = 0
string	E_string = "E = "
int	interface_num = 0
int	jump_num = sub+1
int	vrt_start_num = sub+1
int	vrt_stop_num = sub+2
string	jump_start = 'VRT'
string	jump_stop = 'VRT'
tuple	rotation_z = float(2*360.000/(float(subunits)))
int	z_jump = subunits/2
tuple	z_random_rotation = float(360.000/float(subunits))
tuple	rot_z1 = float(360.000/float(subunits))
float	rot_z2 = 360.000
float	rotation_z2 = 360.000

Variable Documentation

string make_symmdef_file_denovo.E_string = "E = "

Definition at line 171 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.interface_num = 0

Definition at line 172 of file make_symmdef_file_denovo.py.

list make_symmdef_file_denovo.interfaces = []

Definition at line 71 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.jump_num = sub+1

Definition at line 192 of file make_symmdef_file_denovo.py.

string make_symmdef_file_denovo.jump_start = 'VRT'

Definition at line 195 of file make_symmdef_file_denovo.py.

string make_symmdef_file_denovo.jump_stop = 'VRT'

Definition at line 196 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.length = -1

Definition at line 8 of file make_symmdef_file_denovo.py.

Referenced by add_bond_constraint(), ScoreFragmentSetMover.closability_score(), close_loops(), PlotSurfaceContactMap.ContactList(), utility.encode6bit(), ExposedStrandMover.move_superimpose(), ScoreFragmentSetMover.overlap_score(), PDB_IOBenchmark.setUp(), setup_ca_constraints(), slice_ellipsoid_envelope(), and slice_sample_res_and_surrounding().

list make_symmdef_file_denovo.nsub = argv[pos+1]

Definition at line 13 of file make_symmdef_file_denovo.py.

Referenced by numeric::UniformRotationSampler.generateIcosahedralSamples().

int make_symmdef_file_denovo.num_interfaces = 0

Definition at line 156 of file make_symmdef_file_denovo.py.

tuple make_symmdef_file_denovo.pos = argv.index('-symm_type')

Definition at line 10 of file make_symmdef_file_denovo.py.

Referenced by create_base_pair_step_database_test(), numeric::interpolation::spline::PolycubicSpline.dFdxi(), numeric::interpolation::spline::PolycubicSpline.F(), FragID.FragID(), identify_targeted_positions(), main(), numeric::kdtree::KDPointList.operator[](), output_superimposed_pdb(), ObjexxFCL::Fstring.overlay(), processRegions(), utility.replace_in(), rna_design_test(), rna_fullatom_minimize_test(), run(), DockFragmentsMover.run(), FragmentAssemblyMover.run(), sequence_tolerance_main(), ss_ds_ts_assign_test(), and svm_load_model().

tuple make_symmdef_file_denovo.rot_z1 = float(360.000/float(subunits))

Definition at line 272 of file make_symmdef_file_denovo.py.

float make_symmdef_file_denovo.rot_z2 = 360.000

Definition at line 273 of file make_symmdef_file_denovo.py.

tuple make_symmdef_file_denovo.rotation_z = float(2*360.000/(float(subunits)))

Definition at line 205 of file make_symmdef_file_denovo.py.

float make_symmdef_file_denovo.rotation_z2 = 360.000

Definition at line 290 of file make_symmdef_file_denovo.py.

list make_symmdef_file_denovo.slide_criteria_type = ""

Definition at line 46 of file make_symmdef_file_denovo.py.

list make_symmdef_file_denovo.slide_criteria_val = ""

Definition at line 48 of file make_symmdef_file_denovo.py.

string make_symmdef_file_denovo.slide_order = ""

Definition at line 47 of file make_symmdef_file_denovo.py.

list make_symmdef_file_denovo.slide_type = ""

Definition at line 45 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.subsystem_size = 0

Definition at line 44 of file make_symmdef_file_denovo.py.

tuple make_symmdef_file_denovo.subunits = int(nsub)

Definition at line 66 of file make_symmdef_file_denovo.py.

list make_symmdef_file_denovo.symm_type_name = argv[pos+1]

Definition at line 11 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.vrt_start_num = sub+1

Definition at line 193 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.vrt_stop_num = sub+2

Definition at line 194 of file make_symmdef_file_denovo.py.

int make_symmdef_file_denovo.z_jump = subunits/2

Definition at line 226 of file make_symmdef_file_denovo.py.

tuple make_symmdef_file_denovo.z_random_rotation = float(360.000/float(subunits))

Definition at line 227 of file make_symmdef_file_denovo.py.