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Classes | Typedefs | Functions
protocols::stepwise::legacy::modeler::protein Namespace Reference

Classes

class  StepWiseProteinMinimizer
 
class  StepWiseProteinPoseSetup
 

Typedefs

typedef utility::pointer::shared_ptr< StepWiseProteinMinimizerStepWiseProteinMinimizerOP
 
typedef utility::pointer::shared_ptr< StepWiseProteinMinimizer const > StepWiseProteinMinimizerCOP
 
typedef utility::pointer::shared_ptr< StepWiseProteinPoseSetupStepWiseProteinPoseSetupOP
 
typedef utility::pointer::shared_ptr< StepWiseProteinPoseSetup const > StepWiseProteinPoseSetupCOP
 

Functions

utility::vector1< core::Sizeconvert_to_vector1 (ObjexxFCL::FArray1D< core::Size > farray)
 
utility::vector1< core::Size > const convert_to_working_res (utility::vector1< core::Size > const &res_vector, utility::vector1< core::Size > const &working_res)
 
void output_pose_list (utility::vector1< core::pose::PoseOP > pose_list, core::pose::PoseCOP native_pose, std::string const &silent_file, utility::vector1< core::Size > const &working_calc_rms_res, bool const overwrite)
 
void output_silent_struct (core::pose::Pose const &pose, core::pose::PoseCOP const &native_pose_op, std::string const &silent_file, std::string const &tag, core::io::silent::SilentFileDataOP sfd_in)
 
void output_silent_struct (core::pose::Pose const &pose, core::pose::PoseCOP const &native_pose_op, std::string const &silent_file, std::string const &tag, core::io::silent::SilentFileDataOP sfd_in, utility::vector1< core::Size > const &calc_rms_res)
 
Real get_pretend_psi_explicit (core::pose::Pose const &pose, core::Size const &res)
 
Real get_pretend_phi_explicit (core::pose::Pose const &pose, core::Size const &res)
 
bool is_close_chain_break (core::pose::Pose const &pose)
 

Typedef Documentation

◆ StepWiseProteinMinimizerCOP

◆ StepWiseProteinMinimizerOP

◆ StepWiseProteinPoseSetupCOP

◆ StepWiseProteinPoseSetupOP

Function Documentation

◆ convert_to_vector1()

utility::vector1< core::Size > protocols::stepwise::legacy::modeler::protein::convert_to_vector1 ( ObjexxFCL::FArray1D< core::Size farray)

◆ convert_to_working_res()

utility::vector1< core::Size > const protocols::stepwise::legacy::modeler::protein::convert_to_working_res ( utility::vector1< core::Size > const &  res_vector,
utility::vector1< core::Size > const &  working_res 
)

◆ get_pretend_phi_explicit()

core::Real protocols::stepwise::legacy::modeler::protein::get_pretend_phi_explicit ( core::pose::Pose const &  pose,
core::Size const &  res 
)

◆ get_pretend_psi_explicit()

core::Real protocols::stepwise::legacy::modeler::protein::get_pretend_psi_explicit ( core::pose::Pose const &  pose,
core::Size const &  res 
)

◆ is_close_chain_break()

bool protocols::stepwise::legacy::modeler::protein::is_close_chain_break ( core::pose::Pose const &  pose)

◆ output_pose_list()

void protocols::stepwise::legacy::modeler::protein::output_pose_list ( utility::vector1< core::pose::PoseOP pose_list,
core::pose::PoseCOP  native_pose,
std::string const &  silent_file,
utility::vector1< core::Size > const &  working_calc_rms_res,
bool const  overwrite 
)

◆ output_silent_struct() [1/2]

void protocols::stepwise::legacy::modeler::protein::output_silent_struct ( core::pose::Pose const &  pose,
core::pose::PoseCOP const &  native_pose_op,
std::string const &  silent_file,
std::string const &  tag,
core::io::silent::SilentFileDataOP  sfd_in 
)

◆ output_silent_struct() [2/2]

void protocols::stepwise::legacy::modeler::protein::output_silent_struct ( core::pose::Pose const &  pose,
core::pose::PoseCOP const &  native_pose_op,
std::string const &  silent_file,
std::string const &  tag,
core::io::silent::SilentFileDataOP  sfd_in,
utility::vector1< core::Size > const &  calc_rms_res 
)