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Package rosetta :: Package core :: Package fragment :: Module _core_fragment_ :: Class FragData
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Class FragData

 object --+    
          |    
??.instance --+
              |
             FragData
Known Subclasses:

core/fragment/FragData.hh:46

Instance Methods [hide private]
 
__getstate__(self)
Generate a state dictionary containing a serialized fragment frame containing the source fragment.
 
__init__(...)
__init__( (object)arg1) -> None :
 
__reduce__(...)
helper for pickle
 
__reduce_ex__(self, protocol_level)
Fragment reduce implementation, generates annotated fragments.
 
__setstate__(self, state)
Read state dictionary containing a serialized fragment frame containing the source fragment.
 
__str__(...)
__str__( (FragData)arg1) -> object :
 
add_residue(...)
add_residue( (FragData)arg1, (__CPP_SingleResidueFragData__)res) -> None : core/fragment/FragData.hh:137
 
apply(...)
apply( (FragData)arg1, (MoveMap), (Pose), (int)start, (int)end) -> int : core/fragment/FragData.hh:69
 
apply_ss(...)
apply_ss( (FragData)arg1, (MoveMap), (str)ss, (Frame)) -> int : core/fragment/FragData.hh:77
 
chain(...)
chain( (FragData)arg1) -> str : Returns the chain if it has been specified, '_' otherwise.
 
clone(...)
clone( (FragData)arg1) -> FragData : core/fragment/FragData.hh:60
 
copy(...)
copy( (FragData)arg1, (FragData)frag_data) -> None : core/fragment/FragData.hh:89
 
generate_sub_fragment(...)
generate_sub_fragment( (FragData)arg1, (int)start, (int)stop) -> FragData : core/fragment/FragData.hh:146
 
get_residue(...)
get_residue( (FragData)arg1, (int)pos) -> SingleResidueFragData : core/fragment/FragData.hh:141
 
get_self_ptr(...)
get_self_ptr( (FragData)arg1) -> FragData : self pointers
 
is_applicable(...)
is_applicable( (FragData)arg1, (MoveMap), (int)start, (int)end) -> int : core/fragment/FragData.hh:81
 
is_compatible(...)
is_compatible( (FragData)arg1, (FragData)frag_data) -> bool : core/fragment/FragData.hh:92
 
is_valid(...)
is_valid( (FragData)arg1) -> bool : core/fragment/FragData.hh:94
 
pdbid(...)
pdbid( (FragData)arg1) -> str : Returns the PDB identifier if it has been specified, "no_pdb" otherwise.
 
pdbpos(...)
pdbpos( (FragData)arg1) -> int : core/fragment/FragData.hh:169
 
score(...)
score( (FragData)arg1) -> float : Returns the score for this fragment
 
secstruct(...)
secstruct( (FragData)arg1, (int)pos) -> str : core/fragment/FragData.hh:102
 
sequence(...)
sequence( (FragData)arg1, (int)pos) -> str : core/fragment/FragData.hh:106
 
set_residue(...)
set_residue( (FragData)arg1, (int)pos, (__CPP_SingleResidueFragData__)res) -> None : core/fragment/FragData.hh:130
 
set_score(...)
set_score( (FragData)arg1, (float)score) -> None : Set a score value for this fragment
 
set_sequence(...)
set_sequence( (FragData)arg1, (int)pos, (str)setting) -> None : core/fragment/FragData.hh:126
 
set_valid(...)
set_valid( (FragData)arg1 [, (bool)setting=True]) -> None : core/fragment/FragData.hh:154
 
show(...)
show( (FragData)arg1, (OStream)out) -> None : core/fragment/FragData.hh:148
 
show_classic(...)
show_classic( (FragData)arg1, (OStream)out) -> None : core/fragment/FragData.hh:150
 
size(...)
size( (FragData)arg1) -> int : core/fragment/FragData.hh:98
 
steal(...)
steal( (FragData)arg1, (Pose), (int)start, (int)end) -> bool : core/fragment/FragData.hh:85

Inherited from unreachable.instance: __new__

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __repr__, __setattr__, __sizeof__, __subclasshook__

Class Variables [hide private]
  __instance_size__ = 32
Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(...)
(Constructor)

  

__init__( (object)arg1) -> None :

    C++ signature :
        void __init__(_object*)

__init__( (object)arg1, (FragData)) -> None :
    core/fragment/FragData.hh:46

    C++ signature :
        void __init__(_object*,core::fragment::FragData)

__init__( (object)arg1, (__CPP_SingleResidueFragData__), (int)n) -> None :
    core/fragment/FragData.hh:54

    C++ signature :
        void __init__(_object*,boost::shared_ptr<core::fragment::SingleResidueFragData>,unsigned long)
Overrides: object.__init__

__reduce__(...)

 

helper for pickle

Overrides: object.__reduce__
(inherited documentation)

__reduce_ex__(self, protocol_level)

 

Fragment reduce implementation, generates annotated fragments.

Overrides: object.__reduce_ex__

__str__(...)
(Informal representation operator)

  

__str__( (FragData)arg1) -> object :

    C++ signature :
        _object* __str__(core::fragment::FragData {lvalue})
Overrides: object.__str__

add_residue(...)

  

add_residue( (FragData)arg1, (__CPP_SingleResidueFragData__)res) -> None :
    core/fragment/FragData.hh:137

    C++ signature :
        void add_residue(core::fragment::FragData {lvalue},boost::shared_ptr<core::fragment::SingleResidueFragData>)

apply(...)

  

apply( (FragData)arg1, (MoveMap), (Pose), (int)start, (int)end) -> int :
    core/fragment/FragData.hh:69

    C++ signature :
        unsigned long apply(core::fragment::FragData {lvalue},core::kinematics::MoveMap,core::pose::Pose {lvalue},unsigned long,unsigned long)

apply( (FragData)arg1, (MoveMap), (Pose), (int)start, (int)end) -> int :

    C++ signature :
        unsigned long apply(FragData_exposer_callback {lvalue},core::kinematics::MoveMap,core::pose::Pose {lvalue},unsigned long,unsigned long)

apply( (FragData)arg1, (MoveMap), (Pose), (Frame)) -> int :
    core/fragment/FragData.hh:70

    C++ signature :
        unsigned long apply(core::fragment::FragData {lvalue},core::kinematics::MoveMap,core::pose::Pose {lvalue},core::fragment::Frame)

apply( (FragData)arg1, (MoveMap), (Pose), (Frame)) -> int :

    C++ signature :
        unsigned long apply(FragData_exposer_callback {lvalue},core::kinematics::MoveMap,core::pose::Pose {lvalue},core::fragment::Frame)

apply( (FragData)arg1, (Pose), (Frame)) -> int :
    core/fragment/FragData.hh:73

    C++ signature :
        unsigned long apply(core::fragment::FragData {lvalue},core::pose::Pose {lvalue},core::fragment::Frame)

apply( (FragData)arg1, (Pose), (Frame)) -> int :

    C++ signature :
        unsigned long apply(FragData_exposer_callback {lvalue},core::pose::Pose {lvalue},core::fragment::Frame)

apply( (FragData)arg1, (Pose), (int)start, (int)end) -> int :
    core/fragment/FragData.hh:74

    C++ signature :
        unsigned long apply(core::fragment::FragData {lvalue},core::pose::Pose {lvalue},unsigned long,unsigned long)

apply( (FragData)arg1, (Pose), (int)start, (int)end) -> int :

    C++ signature :
        unsigned long apply(FragData_exposer_callback {lvalue},core::pose::Pose {lvalue},unsigned long,unsigned long)

apply_ss(...)

  

apply_ss( (FragData)arg1, (MoveMap), (str)ss, (Frame)) -> int :
    core/fragment/FragData.hh:77

    C++ signature :
        unsigned long apply_ss(core::fragment::FragData {lvalue},core::kinematics::MoveMap,std::string {lvalue},core::fragment::Frame)

apply_ss( (FragData)arg1, (MoveMap), (str)ss, (Frame)) -> int :

    C++ signature :
        unsigned long apply_ss(FragData_exposer_callback {lvalue},core::kinematics::MoveMap,std::string {lvalue},core::fragment::Frame)

chain(...)

  

chain( (FragData)arg1) -> str :
    Returns the chain if it has been specified, '_' otherwise.
    

    C++ signature :
        char chain(core::fragment::FragData {lvalue})

chain( (FragData)arg1) -> str :

    C++ signature :
        char chain(FragData_exposer_callback {lvalue})

clone(...)

  

clone( (FragData)arg1) -> FragData :
    core/fragment/FragData.hh:60

    C++ signature :
        boost::shared_ptr<core::fragment::FragData> clone(core::fragment::FragData {lvalue})

clone( (FragData)arg1) -> FragData :

    C++ signature :
        boost::shared_ptr<core::fragment::FragData> clone(FragData_exposer_callback {lvalue})

copy(...)

  

copy( (FragData)arg1, (FragData)frag_data) -> None :
    core/fragment/FragData.hh:89

    C++ signature :
        void copy(core::fragment::FragData {lvalue},core::fragment::FragData)

copy( (FragData)arg1, (FragData)frag_data) -> None :

    C++ signature :
        void copy(FragData_exposer_callback {lvalue},core::fragment::FragData)

generate_sub_fragment(...)

  

generate_sub_fragment( (FragData)arg1, (int)start, (int)stop) -> FragData :
    core/fragment/FragData.hh:146

    C++ signature :
        boost::shared_ptr<core::fragment::FragData> generate_sub_fragment(core::fragment::FragData {lvalue},unsigned long,unsigned long)

generate_sub_fragment( (FragData)arg1, (int)start, (int)stop) -> FragData :

    C++ signature :
        boost::shared_ptr<core::fragment::FragData> generate_sub_fragment(FragData_exposer_callback {lvalue},unsigned long,unsigned long)

get_residue(...)

  

get_residue( (FragData)arg1, (int)pos) -> SingleResidueFragData :
    core/fragment/FragData.hh:141

    C++ signature :
        boost::shared_ptr<core::fragment::SingleResidueFragData const> get_residue(core::fragment::FragData {lvalue},unsigned long)

get_self_ptr(...)

  

get_self_ptr( (FragData)arg1) -> FragData :
    self pointers
    

    C++ signature :
        boost::shared_ptr<core::fragment::FragData const> get_self_ptr(core::fragment::FragData {lvalue})

get_self_ptr( (FragData)arg1) -> FragData :
    core/fragment/FragData.hh:64

    C++ signature :
        boost::shared_ptr<core::fragment::FragData> get_self_ptr(core::fragment::FragData {lvalue})

is_applicable(...)

  

is_applicable( (FragData)arg1, (MoveMap), (int)start, (int)end) -> int :
    core/fragment/FragData.hh:81

    C++ signature :
        unsigned long is_applicable(core::fragment::FragData {lvalue},core::kinematics::MoveMap,unsigned long,unsigned long)

is_applicable( (FragData)arg1, (MoveMap), (int)start, (int)end) -> int :

    C++ signature :
        unsigned long is_applicable(FragData_exposer_callback {lvalue},core::kinematics::MoveMap,unsigned long,unsigned long)

is_applicable( (FragData)arg1, (MoveMap), (Frame)) -> int :
    core/fragment/FragData.hh:82

    C++ signature :
        unsigned long is_applicable(core::fragment::FragData {lvalue},core::kinematics::MoveMap,core::fragment::Frame)

is_applicable( (FragData)arg1, (MoveMap), (Frame)) -> int :

    C++ signature :
        unsigned long is_applicable(FragData_exposer_callback {lvalue},core::kinematics::MoveMap,core::fragment::Frame)

is_compatible(...)

  

is_compatible( (FragData)arg1, (FragData)frag_data) -> bool :
    core/fragment/FragData.hh:92

    C++ signature :
        bool is_compatible(core::fragment::FragData {lvalue},core::fragment::FragData)

is_valid(...)

  

is_valid( (FragData)arg1) -> bool :
    core/fragment/FragData.hh:94

    C++ signature :
        bool is_valid(core::fragment::FragData {lvalue})

pdbid(...)

  

pdbid( (FragData)arg1) -> str :
    Returns the PDB identifier if it has been specified, "no_pdb" otherwise.
    

    C++ signature :
        std::string pdbid(core::fragment::FragData {lvalue})

pdbid( (FragData)arg1) -> str :

    C++ signature :
        std::string pdbid(FragData_exposer_callback {lvalue})

pdbpos(...)

  

pdbpos( (FragData)arg1) -> int :
    core/fragment/FragData.hh:169

    C++ signature :
        unsigned long pdbpos(core::fragment::FragData {lvalue})

pdbpos( (FragData)arg1) -> int :

    C++ signature :
        unsigned long pdbpos(FragData_exposer_callback {lvalue})

score(...)

  

score( (FragData)arg1) -> float :
    Returns the score for this fragment
    

    C++ signature :
        double score(core::fragment::FragData {lvalue})

secstruct(...)

  

secstruct( (FragData)arg1, (int)pos) -> str :
    core/fragment/FragData.hh:102

    C++ signature :
        char secstruct(core::fragment::FragData {lvalue},unsigned long)

secstruct( (FragData)arg1) -> str :
    core/fragment/FragData.hh:110

    C++ signature :
        std::string secstruct(core::fragment::FragData {lvalue})

sequence(...)

  

sequence( (FragData)arg1, (int)pos) -> str :
    core/fragment/FragData.hh:106

    C++ signature :
        char sequence(core::fragment::FragData {lvalue},unsigned long)

sequence( (FragData)arg1) -> str :
    core/fragment/FragData.hh:118

    C++ signature :
        std::string sequence(core::fragment::FragData {lvalue})

set_residue(...)

  

set_residue( (FragData)arg1, (int)pos, (__CPP_SingleResidueFragData__)res) -> None :
    core/fragment/FragData.hh:130

    C++ signature :
        void set_residue(core::fragment::FragData {lvalue},unsigned long,boost::shared_ptr<core::fragment::SingleResidueFragData>)

set_score(...)

  

set_score( (FragData)arg1, (float)score) -> None :
    Set a score value for this fragment
    

    C++ signature :
        void set_score(core::fragment::FragData {lvalue},double)

set_sequence(...)

  

set_sequence( (FragData)arg1, (int)pos, (str)setting) -> None :
    core/fragment/FragData.hh:126

    C++ signature :
        void set_sequence(core::fragment::FragData {lvalue},unsigned long,char)

set_valid(...)

  

set_valid( (FragData)arg1 [, (bool)setting=True]) -> None :
    core/fragment/FragData.hh:154

    C++ signature :
        void set_valid(core::fragment::FragData {lvalue} [,bool=True])

show(...)

  

show( (FragData)arg1, (OStream)out) -> None :
    core/fragment/FragData.hh:148

    C++ signature :
        void show(core::fragment::FragData {lvalue},std::ostream {lvalue})

show( (FragData)arg1, (OStream)out) -> None :

    C++ signature :
        void show(FragData_exposer_callback {lvalue},std::ostream {lvalue})

show( (FragData)arg1, (OStream)out, (Frame)) -> None :
    core/fragment/FragData.hh:149

    C++ signature :
        void show(core::fragment::FragData {lvalue},std::ostream {lvalue},core::fragment::Frame)

show( (FragData)arg1, (OStream)out, (Frame)) -> None :

    C++ signature :
        void show(FragData_exposer_callback {lvalue},std::ostream {lvalue},core::fragment::Frame)

show_classic(...)

  

show_classic( (FragData)arg1, (OStream)out) -> None :
    core/fragment/FragData.hh:150

    C++ signature :
        void show_classic(core::fragment::FragData {lvalue},std::ostream {lvalue})

show_classic( (FragData)arg1, (OStream)out) -> None :

    C++ signature :
        void show_classic(FragData_exposer_callback {lvalue},std::ostream {lvalue})

size(...)

  

size( (FragData)arg1) -> int :
    core/fragment/FragData.hh:98

    C++ signature :
        unsigned long size(core::fragment::FragData {lvalue})

steal(...)

  

steal( (FragData)arg1, (Pose), (int)start, (int)end) -> bool :
    core/fragment/FragData.hh:85

    C++ signature :
        bool steal(core::fragment::FragData {lvalue},core::pose::Pose,unsigned long,unsigned long)

steal( (FragData)arg1, (Pose), (int)start, (int)end) -> bool :

    C++ signature :
        bool steal(FragData_exposer_callback {lvalue},core::pose::Pose,unsigned long,unsigned long)

steal( (FragData)arg1, (Pose), (Frame)) -> bool :
    core/fragment/FragData.hh:86

    C++ signature :
        bool steal(core::fragment::FragData {lvalue},core::pose::Pose,core::fragment::Frame)

steal( (FragData)arg1, (Pose), (Frame)) -> bool :

    C++ signature :
        bool steal(FragData_exposer_callback {lvalue},core::pose::Pose,core::fragment::Frame)

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