Rosetta 3.4
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protocols::comparative_modeling::hybridize Namespace Reference

Classes

class  CartesianHybridize
class  ChunkTrialMover
class  FoldTreeHybridize
class  HybridizeFoldtreeDynamic
class  HybridizeProtocol
class  HybridizeProtocolCreator
class  InsertChunkMover
class  TemplateHistory
class  WeightedFragmentTrialMover

Typedefs

typedef
utility::pointer::owning_ptr
< CartesianHybridize
CartesianHybridizeOP
typedef
utility::pointer::owning_ptr
< CartesianHybridize const > 
CartesianHybridizeCOP
typedef
utility::pointer::owning_ptr
< ChunkTrialMover
ChunkTrialMoverOP
typedef
utility::pointer::owning_ptr
< ChunkTrialMover const > 
ChunkTrialMoverCOP
typedef
utility::pointer::owning_ptr
< FoldTreeHybridize
FoldTreeHybridizeOP
typedef
utility::pointer::owning_ptr
< FoldTreeHybridize const > 
FoldTreeHybridizeCOP
typedef
utility::pointer::owning_ptr
< HybridizeFoldtreeMover > 
HybridizeFoldtreeMoverOP
typedef
utility::pointer::owning_ptr
< HybridizeFoldtreeMover const > 
HybridizeFoldtreeMoverCOP
typedef
utility::pointer::owning_ptr
< HybridizeProtocol
HybridizeProtocolOP
typedef
utility::pointer::owning_ptr
< HybridizeProtocol const > 
HybridizeProtocolCOP
typedef
utility::pointer::owning_ptr
< TemplateHistory
TemplateHistoryOP
typedef
utility::pointer::owning_ptr
< TemplateHistory const > 
TemplateHistoryCOP
typedef
utility::pointer::owning_ptr
< WeightedFragmentTrialMover
WeightedFragmentTrialMoverOP
typedef
utility::pointer::owning_ptr
< WeightedFragmentTrialMover
const > 
WeightedFragmentTrialMoverCOP

Enumerations

enum  AlignOption { all_chunks, random_chunk }

Functions

static basic::Tracer TR ("protocols.comparative_modeling.hybridize.CartesianHybridize")
static basic::Tracer TZ ("protocols.comparative_modeling.hybridize.TemplateHistory")
bool discontinued_upper (core::pose::Pose const &pose, Size const seqpos)
bool discontinued_lower (core::pose::Pose const &pose, Size const seqpos)
std::list< Sizedownstream_residues_from_jump (core::pose::Pose const &pose, Size const jump_number)

Variables

const core::Size DEFAULT_NCYCLES = 400

Typedef Documentation


Enumeration Type Documentation

Enumerator:
all_chunks 
random_chunk 

Function Documentation

bool protocols::comparative_modeling::hybridize::discontinued_lower ( core::pose::Pose const &  pose,
Size const  seqpos 
)
bool protocols::comparative_modeling::hybridize::discontinued_upper ( core::pose::Pose const &  pose,
Size const  seqpos 
)
std::list< Size > protocols::comparative_modeling::hybridize::downstream_residues_from_jump ( core::pose::Pose const &  pose,
Size const  jump_number 
)
static basic::Tracer protocols::comparative_modeling::hybridize::TR ( "protocols.comparative_modeling.hybridize.CartesianHybridize"  ) [static]

Referenced by protocols::comparative_modeling::hybridize::FoldTreeHybridize::add_gap_constraints_to_pose(), protocols::comparative_modeling::hybridize::HybridizeProtocol::add_template(), protocols::comparative_modeling::hybridize::HybridizeProtocol::apply(), protocols::comparative_modeling::hybridize::FoldTreeHybridize::apply(), protocols::comparative_modeling::hybridize::ChunkTrialMover::apply(), protocols::comparative_modeling::hybridize::CartesianHybridize::apply(), protocols::comparative_modeling::hybridize::CartesianHybridize::CartesianHybridize(), protocols::comparative_modeling::hybridize::InsertChunkMover::change_anchor(), protocols::comparative_modeling::hybridize::InsertChunkMover::get_local_sequence_mapping(), protocols::comparative_modeling::hybridize::FoldTreeHybridize::get_residue_weights_from_loops(), protocols::comparative_modeling::hybridize::HybridizeProtocol::init(), protocols::comparative_modeling::hybridize::HybridizeProtocol::initialize_and_sample_loops(), protocols::comparative_modeling::hybridize::HybridizeProtocol::read_template_structures(), protocols::comparative_modeling::hybridize::InsertChunkMover::set_bb_xyz_aligned(), protocols::comparative_modeling::hybridize::FoldTreeHybridize::setup_foldtree(), protocols::comparative_modeling::hybridize::InsertChunkMover::steal_torsion_and_bonds_from_template(), protocols::comparative_modeling::hybridize::InsertChunkMover::steal_torsion_from_template(), and protocols::comparative_modeling::hybridize::FoldTreeHybridize::translate_virt_to_CoM().

static basic::Tracer protocols::comparative_modeling::hybridize::TZ ( "protocols.comparative_modeling.hybridize.TemplateHistory"  ) [static]

Variable Documentation

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