Membrane Member List

This is the complete list of members for Membrane, including all inherited members.

add_to_force(double force, int index, int coor)	Membrane	inline
add_ulm_mode_real(int Ell, int M, double uLM, double radius)	Membrane
AddRandomModes	Membrane
analysis_init(std::string Mesh_path)	Membrane
aq_alexandra	Membrane
aq_alexandra_proj	Membrane
Aq_H	Membrane
Aq_H_proj	Membrane
assign_parameters(void)	Membrane
Average_Node_Distance()	Membrane	protected
Average_node_pair_length	Membrane
Begin_update_time_in_Ps	Membrane	protected
Bending_coefficient	Membrane
bending_model	Membrane
Bending_potetial_2(double theta_0)	Membrane	protected
Bond_triangle_neighbour_indices	Membrane
Bond_triangle_neighbour_list_constructor()	Membrane
bq_alexandra	Membrane
bq_alexandra_proj	Membrane
Bq_H	Membrane
Bq_H_proj	Membrane
calc_assoc_legendre(int ell, int m, double x)	Membrane
calc_complex_ylm_surface_integral(int ell, int m, double radius)	Membrane
calc_complex_ylmthetaphi(int l, int m, double theta, double phi)	Membrane
calc_real_ylmthetaphi(int l, int m, double theta, double phi)	Membrane
calc_theta_angle_ABC(int node_A, int node_B, int node_C)	Membrane
calc_vectorlist_vectorlist_surface_integral(vector< std::complex< double > > vectorlist1, vector< std::complex< double > > vectorlist2)	Membrane
calc_vectorlist_vectorlist_surface_integral(vector< std::complex< double > > vectorlist1, vector< double > vectorlist2)	Membrane
calc_vectorlist_vectorlist_surface_integral(vector< double > vectorlist1, vector< double > vectorlist2)	Membrane
calculate_2D_amplitudes_Alexandra(int q_max)	Membrane
calculate_2D_amplitudes_Alexandra_projection(int q_max, int numpoints)	Membrane
calculate_bending_energy(void)	Membrane
calculate_contourRadius(void)	Membrane
calculate_contourSegmentLength(void)	Membrane
calculate_deltaphi(void)	Membrane
calculate_deltaphi_Alexandra(void)	Membrane
calculate_dOmega(void)	Membrane
calculate_freqs(ArgStruct_Analysis args)	Membrane
calculate_freqs_projection(ArgStruct_Analysis args)	Membrane
calculate_modeAmplitudes2D(void)	Membrane
calculate_real_ulm(ArgStruct_Analysis args)	Membrane
calculate_real_ulm(ArgStruct_Analysis args, char Requiv, bool clear)	Membrane
calculate_surface_area_with_voronoi(void)	Membrane
calculate_ulm(ArgStruct_Analysis args)	Membrane
calculate_ulm_radiustest(int ell_max, int analysis_averaging_option)	Membrane
calculate_ulm_radiustest_real(int ell_max, int analysis_averaging_option)	Membrane
calculate_ulm_sub_particles(int ell_max, int analysis_averaging_option)	Membrane
calculate_volume_and_surface_area(void)	Membrane
calculateH_2D_amplitudes(int q_max)	Membrane
calculateH_2D_amplitudes_projection(int q_max, int numpoints)	Membrane
calculating_dihedral_energy()	Membrane	protected
calculating_the_bend_energy(int uncommn1, int common2, int common3, int uncommon4, bool initial_or_final, MyAtomInfo atoms[], int number_of_privious_mem_nodes)	Membrane
calculating_the_bend_energy_2(int uncommon1, int common2, int common3, int uncommon4, MyAtomInfo atoms[], int number_of_privious_mem_nodes)	Membrane
calculating_the_bond_energy(int index, bool initial_or_final, MyAtomInfo atoms[], int number_of_privious_mem_nodes)	Membrane
calculating_the_bond_energy_check(int p1, int p2, MyAtomInfo atoms[])	Membrane
calculating_the_bond_length_check(int p1, int p2, MyAtomInfo atoms[])	Membrane
chainlist	Membrane
check(void)	Membrane
check_before_update(int triangle_A, int triangle_B, int new_neighbour_dihedrals[4][6], int &pyramid_counter, bool &accept)	Membrane
check_monte_carlo	Membrane
check_Pyramid(vector< int > A_neighbors, vector< int > B_neighbors)	Membrane
check_Pyramid_2(int initial_pair, vector< int > A_neighbours_dihedral_index, vector< int > B_neighbours_dihedral_index)	Membrane
check_radius_update_values(void)	Membrane
check_the_flip(MyOpenMMData *omm, Bonds *bonds, Dihedrals *dihedrals)	Membrane
COM_position	Membrane	protected
COM_velocity	Membrane	protected
consistancy_check(void)	Membrane
contourradii	Membrane
contourRadius	Membrane
contourSegmentLength	Membrane
convert_spherical_positions_to_cartisian()	Membrane
custom(void)	Membrane	protected
Damping_coefficient	Membrane
deltaphi	Membrane
dihedral_atoms	Membrane	protected
Elastic_Force_Calculator(double theta_0)	Membrane
EllMaxOfRandomModes	Membrane
End_update_time_in_Ps	Membrane	protected
epsilon_LJ_12_6	Membrane	protected
export_for_resume(int MD_step)	Membrane
export_for_resume(int MD_step, MyAtomInfo atoms[], int atom_count)	Membrane
Export_Mechanical_Energy(string filename, int frame)	Membrane
ext_force_model	Membrane
FENE_epsilon	Membrane	protected
FENE_k	Membrane	protected
FENE_log(void)	Membrane	protected
FENE_max	Membrane	protected
FENE_min	Membrane	protected
file_time	Membrane
find_the_new_neighbour(int neighbour_id[6], int previous_dihedral_index, int initial_pair, bool A_or_B)	Membrane
generate_ulm_mode(int ell, int m, double ulm, double radius)	Membrane
generate_ulm_mode_real(int Ell, int M, double uLM, double radius)	Membrane
get_average_Membrane_radius(void)	Membrane	inline
get_avg_node_dist(void)	Membrane	inline
get_Begin_update_time_in_Ps(void)	Membrane	inline
get_bending_model(void)	Membrane	inline
get_bending_stiffness_coefficient(void)	Membrane	inline
get_bond_length_distribution(void)	Membrane
get_damping_coefficient(void)	Membrane	inline
get_dihedral_atoms_list(int index)	Membrane	inline
get_End_update_time_in_Ps(void)	Membrane	inline
get_epsilon_LJ_12_6(void)	Membrane	inline
get_ext_force_model(void)	Membrane	inline
get_GeometricProps_flag()	Membrane	inline
get_gompper_params_lminlc1lc0lmax()	Membrane	inline
get_ground_state_from_frame(ArgStruct_Analysis args)	Membrane
get_ground_state_from_mesh(ArgStruct_Analysis args)	Membrane
get_insertOrder()	Membrane	inline
get_kx(void)	Membrane	inline
get_ky(void)	Membrane	inline
get_kz(void)	Membrane	inline
get_label(void)	Membrane	inline
get_map()	Membrane	inline
get_membrane_weighted_radius(void)	Membrane	inline
get_new_Membrane_radius(void)	Membrane	inline
get_new_radius(void)	Membrane	inline
get_node_mass(void)	Membrane	inline
get_node_normal_vec(int node)	Membrane	inline
get_node_pair(int bond_num, int node_id)	Membrane	inline
get_node_pair_Nominal_Length_in_Nm(int bond_num)	Membrane	inline
get_node_position(int node_number, int node_coordinate)	Membrane	inline
get_node_radius(int index)	Membrane	inline
get_node_velocity(int node_number, int node_coordinate)	Membrane	inline
get_node_voronoi_area(int node)	Membrane	inline
get_num_of_node_pairs(void)	Membrane	inline
get_num_of_nodes(void)	Membrane	inline
get_num_of_triangle()	Membrane	inline
get_num_of_triangle_pairs()	Membrane	inline
get_real_ylm_vectorlist_for_mesh(int ell, int m)	Membrane
get_ring(ArgStruct_Analysis args)	Membrane
get_ring_from_projection(ArgStruct_Analysis args, int numpoints)	Membrane
get_sigma_LJ_12_6(void)	Membrane	inline
get_spherical_position(int node_number, int node_coordinate)	Membrane	inline
get_spontaneous_angle_in_Rad(int nodePairIndex)	Membrane	inline
get_spring_model(void)	Membrane	inline
get_spring_stiffness_coefficient(void)	Membrane	inline
get_surface_area(void)	Membrane	inline
get_surface_area_voronoi()	Membrane	inline
get_traingle_pair_node(int triangle_pair, int index)	Membrane	inline
get_traingle_pair_nodes_list(int triangle_pair)	Membrane	inline
get_ulmYlm_vectorlist_for_mesh()	Membrane
get_ulmYlm_vectorlist_for_mesh(char Requiv)	Membrane
get_update_status(void)	Membrane	inline
get_volume(void)	Membrane	inline
get_voronoi_node_area()	Membrane	inline
get_ylm_vectorlist_for_mesh(int ell, int m, bool complex_conjugate)	Membrane
GompperBondPotentialLminLc1Lc0Lmax	Membrane
harmonic_potential_calculator(void)	Membrane
import(std::string import_file_name)	Membrane
import_config(vector< string > configlines)	Membrane
import_pdb_frames(ArgStruct_Analysis args, int file_index)	Membrane
index	Membrane	protected
initial_random_rotation_coordinates	Membrane
initialise(std::string Mesh_file_name)	Membrane
insertOrder	Membrane
kx	Membrane
ky	Membrane
kz	Membrane
label	Membrane	protected
load_pdb_frame(int frame, ArgStruct_Analysis args)	Membrane
Max_node_pair_length	Membrane
Mechanical_Energy_calculator()	Membrane
Membrane()	Membrane	inline
Mesh_file_name	Membrane	protected
mesh_format	Membrane
Min_node_pair_length	Membrane
monte_carlo_flip(MyOpenMMData *omm, Bonds *bonds, Dihedrals *dihedrals, MyAtomInfo atoms[], double &localDeltaE, int &Accepted_Try_Counter, int &pyramid_counter, int &MC_total_tries, double &MC_Acceptance_Rate)	Membrane
myWritePDBFrame(int frameNum, std::string traj_name)	Membrane
New_node_radius	Membrane	protected
New_Radius	Membrane	protected
Node_Bond_list	Membrane
Node_Bond_Nominal_Length_in_Nm	Membrane
Node_Bond_Nominal_Length_stat	Membrane
Node_Bond_user_defined_Nominal_Length_in_Nm	Membrane
Node_Bonds_identifier(void)	Membrane	protected
node_dOmega	Membrane
Node_Force	Membrane
Node_Mass	Membrane	protected
Node_neighbour_list	Membrane
Node_neighbour_list_constructor()	Membrane
Node_neighbour_list_respective_bond_index	Membrane
Node_Position	Membrane
Node_radius	Membrane	protected
Node_radius_stat	Membrane	protected
Node_Velocity	Membrane
node_voronoi_area	Membrane
node_voronoi_normal_vec	Membrane
Normal_direction_Identifier()	Membrane	protected
Num_of_Node_Pairs	Membrane	protected
Num_of_Nodes	Membrane	protected
Num_of_Triangle_Pairs	Membrane	protected
Num_of_Triangles	Membrane	protected
NumberOfRandomModes	Membrane
output_file_neme	Membrane
param_map	Membrane	protected
Params	Membrane
pdb_frames	Membrane
pdb_frames_time	Membrane
Radius	Membrane	protected
ranfomundulationgenerator(void)	Membrane
read_gmesh_file(std::string gmesh_file)	Membrane	protected
read_ply_file(std::string ply_file)	Membrane	protected
rescale_factor	Membrane
rescale_membrane(double factor)	Membrane	inline
resume_file_name	Membrane	protected
ringNodeList	Membrane
rotate_coordinates(double theta, double phi)	Membrane
rotate_particle_to_axes(ArgStruct_Analysis args)	Membrane
set_bending_nominal_angle(void)	Membrane
set_bond_nominal_length(void)	Membrane
set_com_to_zero()	Membrane	inline
set_dihedral_atoms(void)	Membrane
set_FENE_param(double &le0, double &le1, double &lmin, double &lmax)	Membrane	inline
set_FENE_param_2(double &lmin, double &lmax, double &epsilon, double &k)	Membrane	inline
set_file_time(char *buffer)	Membrane	inline
set_index(int ind)	Membrane	inline
set_label(std::string lab)	Membrane	inline
set_node_radius(void)	Membrane
set_state(MyAtomInfo all_atoms[], int atom_count)	Membrane
shift_position(double x, double y, double z)	Membrane	inline
Shift_position_xyzVector	Membrane
Shift_velocities_xyzVector	Membrane
shift_velocity(double vx, double vy, double vz)	Membrane	inline
sigma_LJ_12_6	Membrane	protected
spherical_positions	Membrane
SpontaneousTriangleBendingInDegrees	Membrane
Spring_coefficient	Membrane
spring_model	Membrane
surface_area	Membrane	protected
surface_area_voronoi	Membrane
Total_Bending_Energy	Membrane	protected
Total_Bond_Energy	Membrane	protected
Total_Kinetic_Energy	Membrane	protected
Total_Potential_Energy	Membrane	protected
Triangle_list	Membrane
Triangle_Pair_and_Node_Bonds_Identifier()	Membrane
Triangle_pair_angle_stat	Membrane
Triangle_pair_angles_in_radians	Membrane
Triangle_pair_counter()	Membrane	protected
Triangle_pair_identifier(void)	Membrane	protected
Triangle_pair_list	Membrane
Triangle_Pair_Nodes	Membrane
Triangle_pair_Nominal_angle_in_degrees	Membrane
ulm_avg	Membrane
ulm_Mesh	Membrane
ulm_std	Membrane
ulm_temp_for_analysis	Membrane
UlmOfRandomModes	Membrane
update_average_Membrane_radius(void)	Membrane	inline
update_COM_position(void)	Membrane	inline
update_COM_velocity(void)	Membrane	inline
Update_Membrane(int initial_pair, int triangle_A, int triangle_B, int new_neighbour_dihedrals[4][6], int &bond_index)	Membrane
update_Membrane_class_and_openmm(int initial_pair, int triangle_A, int triangle_B, int new_neighbour_dihedrals[4][6], MyOpenMMData *omm, Bonds *bonds, Dihedrals *dihedrals)	Membrane
update_radius_stat	Membrane	protected
update_spherical_positions()	Membrane
updatepos(double)	Membrane
values	Membrane
volume	Membrane	protected
WantGeometricProps	Membrane	protected
write_geometrics()	Membrane
write_pov_traj(std::string traj_name, std::string label, int currentstep)	Membrane
write_ulm(ArgStruct_Analysis args, int file_index)	Membrane
write_un_uq(ArgStruct_Analysis args, int file_index)	Membrane
write_un_uq_projection(ArgStruct_Analysis args, int file_index)	Membrane
write_uq_SH(ArgStruct_Analysis args, int file_index)	Membrane
WriteMemPDBFrame(ArgStruct_Analysis args, vector< int > chainlist)	Membrane
X_in	Membrane	protected
X_scale	Membrane	protected
Y_in	Membrane	protected
Y_scale	Membrane	protected
Z_in	Membrane	protected
Z_scale	Membrane	protected