Bindings for core::environment namespace

Classes
		builtins.object DofPassport EnvCore FoldTreeSketch LocalPosition SequenceAnnotation rosetta.utility.excn.EXCN_Msg_Exception(rosetta.utility.excn.EXCN_Exception) EXCN_Env_Exception EXCN_FTSketchGraph   class DofPassport(builtins.object)       Methods defined here: __init__(self, /, *args, **kwargs) Initialize self.  See help(type(self)) for accurate signature. __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. __str__(...) from builtins.PyCapsule __str__(rosetta.core.environment.DofPassport) -> str active_dofs(...) from builtins.PyCapsule active_dofs(rosetta.core.environment.DofPassport) -> rosetta.std.set_core_id_DOF_ID_std_less_core_id_DOF_ID_std_allocator_core_id_DOF_ID_t active_jumps(...) from builtins.PyCapsule active_jumps(rosetta.core.environment.DofPassport) -> rosetta.utility.vector1_int add_dof_access(...) from builtins.PyCapsule add_dof_access(self : rosetta.core.environment.DofPassport, id : rosetta.core.id.DOF_ID) -> NoneType   configure passport to allow access to a bond length or angle dof_id      the DOF_ID to allow access to assign(...) from builtins.PyCapsule assign(self : rosetta.core.environment.DofPassport,  : rosetta.core.environment.DofPassport) -> rosetta.core.environment.DofPassport begin(...) from builtins.PyCapsule begin(rosetta.core.environment.DofPassport) -> std::_Rb_tree_const_iterator<core::id::DOF_ID> dof_access(...) from builtins.PyCapsule dof_access(*args, **kwargs) Overloaded function.   1. dof_access(self : rosetta.core.environment.DofPassport, id : rosetta.core.id.DOF_ID) -> bool   2. dof_access(self : rosetta.core.environment.DofPassport,  : core::environment::EnvCore, id : rosetta.core.id.DOF_ID) -> bool end(...) from builtins.PyCapsule end(rosetta.core.environment.DofPassport) -> std::_Rb_tree_const_iterator<core::id::DOF_ID> env_id(...) from builtins.PyCapsule env_id(rosetta.core.environment.DofPassport) -> int has_jump_access(...) from builtins.PyCapsule has_jump_access(self : rosetta.core.environment.DofPassport, jump_num : int) -> bool mover(...) from builtins.PyCapsule mover(rosetta.core.environment.DofPassport) -> str reference_conformation(...) from builtins.PyCapsule reference_conformation(*args, **kwargs) Overloaded function.   1. reference_conformation(rosetta.core.environment.DofPassport) -> rosetta.core.conformation.Conformation   2. reference_conformation(self : rosetta.core.environment.DofPassport, conf : rosetta.core.conformation.Conformation) -> NoneType render_movemap(...) from builtins.PyCapsule render_movemap(*args, **kwargs) Overloaded function.   1. render_movemap(rosetta.core.environment.DofPassport) -> core::kinematics::MoveMap   2. render_movemap(self : rosetta.core.environment.DofPassport,  : core::kinematics::MoveMap) -> NoneType revoke_all_access(...) from builtins.PyCapsule revoke_all_access(rosetta.core.environment.DofPassport) -> NoneType   class EXCN_Env_Exception(rosetta.utility.excn.EXCN_Msg_Exception)       Method resolution order: EXCN_Env_Exception rosetta.utility.excn.EXCN_Msg_Exception rosetta.utility.excn.EXCN_Exception rosetta.utility.excn.EXCN_Base builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(self : handle, env_ap : rosetta.std.weak_ptr_const_core_environment_EnvCore_t) -> NoneType   2. __init__(handle, rosetta.core.environment.EXCN_Env_Exception) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.core.environment.EXCN_Env_Exception,  : rosetta.core.environment.EXCN_Env_Exception) -> rosetta.core.environment.EXCN_Env_Exception Methods inherited from rosetta.utility.excn.EXCN_Msg_Exception: add_msg(...) from builtins.PyCapsule add_msg(self : rosetta.utility.excn.EXCN_Msg_Exception, str : str) -> NoneType msg(...) from builtins.PyCapsule msg(rosetta.utility.excn.EXCN_Msg_Exception) -> str Methods inherited from rosetta.utility.excn.EXCN_Base: __str__(...) from builtins.PyCapsule __str__(rosetta.utility.excn.EXCN_Base) -> str   class EXCN_FTSketchGraph(rosetta.utility.excn.EXCN_Msg_Exception)       Method resolution order: EXCN_FTSketchGraph rosetta.utility.excn.EXCN_Msg_Exception rosetta.utility.excn.EXCN_Exception rosetta.utility.excn.EXCN_Base builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(self : handle, by : int, on : int, action : str, reason : str) -> NoneType   2. __init__(self : handle, message : str) -> NoneType   3. __init__(handle, rosetta.core.environment.EXCN_FTSketchGraph) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.core.environment.EXCN_FTSketchGraph,  : rosetta.core.environment.EXCN_FTSketchGraph) -> rosetta.core.environment.EXCN_FTSketchGraph Methods inherited from rosetta.utility.excn.EXCN_Msg_Exception: add_msg(...) from builtins.PyCapsule add_msg(self : rosetta.utility.excn.EXCN_Msg_Exception, str : str) -> NoneType msg(...) from builtins.PyCapsule msg(rosetta.utility.excn.EXCN_Msg_Exception) -> str Methods inherited from rosetta.utility.excn.EXCN_Base: __str__(...) from builtins.PyCapsule __str__(rosetta.utility.excn.EXCN_Base) -> str   class EnvCore(builtins.object)       Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(self : rosetta.core.environment.EnvCore, env_name : str) -> NoneType   2. __init__(self : rosetta.core.environment.EnvCore,  : rosetta.core.environment.EnvCore) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. id(...) from builtins.PyCapsule id(rosetta.core.environment.EnvCore) -> int name(...) from builtins.PyCapsule name(rosetta.core.environment.EnvCore) -> str superenv(...) from builtins.PyCapsule superenv(rosetta.core.environment.EnvCore) -> rosetta.std.weak_ptr_const_core_environment_EnvCore_t   class FoldTreeSketch(builtins.object)       Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(rosetta.core.environment.FoldTreeSketch) -> NoneType   2. __init__(self : rosetta.core.environment.FoldTreeSketch, length : int) -> NoneType   3. __init__(self : rosetta.core.environment.FoldTreeSketch,  : rosetta.core.kinematics.FoldTree) -> NoneType   4. __init__(self : rosetta.core.environment.FoldTreeSketch,  : rosetta.core.environment.FoldTreeSketch) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. append_peptide(...) from builtins.PyCapsule append_peptide(self : rosetta.core.environment.FoldTreeSketch, l : int) -> NoneType   add a new (graph-detached) peptide-bonded strech of length l at the end of the sequence append_residue(...) from builtins.PyCapsule append_residue(rosetta.core.environment.FoldTreeSketch) -> NoneType assign(...) from builtins.PyCapsule assign(self : rosetta.core.environment.FoldTreeSketch,  : rosetta.core.environment.FoldTreeSketch) -> rosetta.core.environment.FoldTreeSketch cycle(...) from builtins.PyCapsule cycle(*args, **kwargs) Overloaded function.   1. cycle(rosetta.core.environment.FoldTreeSketch) -> rosetta.utility.vector1_unsigned_long   2. cycle(self : rosetta.core.environment.FoldTreeSketch, start : int) -> rosetta.utility.vector1_unsigned_long has_cut(...) from builtins.PyCapsule has_cut(self : rosetta.core.environment.FoldTreeSketch,  : int) -> bool has_jump(...) from builtins.PyCapsule has_jump(self : rosetta.core.environment.FoldTreeSketch, p1 : int, p2 : int) -> bool insert_cut(...) from builtins.PyCapsule insert_cut(*args, **kwargs) Overloaded function.   1. insert_cut(self : rosetta.core.environment.FoldTreeSketch, l : int) -> NoneType   insert a cut after position l (i.e. between position l and l+1)   2. insert_cut(self : rosetta.core.environment.FoldTreeSketch, bias : rosetta.utility.vector1_double) -> int   randomly insert a cut using the bias passed in. insert_jump(...) from builtins.PyCapsule insert_jump(self : rosetta.core.environment.FoldTreeSketch, p1 : int, p2 : int) -> NoneType   insert a jump between positions p1 and p2 in the graph nres(...) from builtins.PyCapsule nres(rosetta.core.environment.FoldTreeSketch) -> int num_cuts(...) from builtins.PyCapsule num_cuts(rosetta.core.environment.FoldTreeSketch) -> int num_jumps(...) from builtins.PyCapsule num_jumps(rosetta.core.environment.FoldTreeSketch) -> int remove_cycles(...) from builtins.PyCapsule remove_cycles(*args, **kwargs) Overloaded function.   1. remove_cycles(rosetta.core.environment.FoldTreeSketch) -> rosetta.std.set_unsigned_long_std_less_unsigned_long_std_allocator_unsigned_long_t   2. remove_cycles(self : rosetta.core.environment.FoldTreeSketch, bias : rosetta.utility.vector1_double) -> rosetta.std.set_unsigned_long_std_less_unsigned_long_std_allocator_unsigned_long_t render(...) from builtins.PyCapsule render(*args, **kwargs) Overloaded function.   1. render(rosetta.core.environment.FoldTreeSketch) -> rosetta.core.kinematics.FoldTree   wrapper for the other render()   2. render(self : rosetta.core.environment.FoldTreeSketch, ft : rosetta.core.kinematics.FoldTree) -> NoneType   build this graph into the FoldTree ft. The state of the graph must be valid here.   class LocalPosition(builtins.object)       Methods defined here: __eq__(...) from builtins.PyCapsule __eq__(self : rosetta.core.environment.LocalPosition,  : rosetta.core.environment.LocalPosition) -> bool __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(rosetta.core.environment.LocalPosition) -> NoneType   2. __init__(self : rosetta.core.environment.LocalPosition, comma_deliniated : str) -> NoneType   3. __init__(self : rosetta.core.environment.LocalPosition,  : str,  : int) -> NoneType   4. __init__(self : rosetta.core.environment.LocalPosition,  : rosetta.core.environment.LocalPosition) -> NoneType __ne__(...) from builtins.PyCapsule __ne__(self : rosetta.core.environment.LocalPosition,  : rosetta.core.environment.LocalPosition) -> bool __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. __str__(...) from builtins.PyCapsule __str__(rosetta.core.environment.LocalPosition) -> str assign(...) from builtins.PyCapsule assign(self : rosetta.core.environment.LocalPosition,  : rosetta.core.environment.LocalPosition) -> rosetta.core.environment.LocalPosition label(...) from builtins.PyCapsule label(rosetta.core.environment.LocalPosition) -> str position(...) from builtins.PyCapsule position(rosetta.core.environment.LocalPosition) -> int   class SequenceAnnotation(builtins.object)       Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.core.environment.SequenceAnnotation, length : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. add_jump_label(...) from builtins.PyCapsule add_jump_label(self : rosetta.core.environment.SequenceAnnotation,  : str,  : int) -> NoneType add_seq_label(...) from builtins.PyCapsule add_seq_label(*args, **kwargs) Overloaded function.   1. add_seq_label(self : rosetta.core.environment.SequenceAnnotation,  : str,  : rosetta.std.vector_unsigned_long) -> NoneType   2. add_seq_label(self : rosetta.core.environment.SequenceAnnotation,  : str,  : rosetta.utility.vector1_unsigned_long) -> NoneType append_seq(...) from builtins.PyCapsule append_seq(self : rosetta.core.environment.SequenceAnnotation, label : str) -> NoneType   append a single residue with the given label to the end of the Annotation assign(...) from builtins.PyCapsule assign(self : rosetta.core.environment.SequenceAnnotation,  : rosetta.core.environment.SequenceAnnotation) -> rosetta.core.environment.SequenceAnnotation has_seq_label(...) from builtins.PyCapsule has_seq_label(self : rosetta.core.environment.SequenceAnnotation,  : str) -> bool length(...) from builtins.PyCapsule length(*args, **kwargs) Overloaded function.   1. length(rosetta.core.environment.SequenceAnnotation) -> int   2. length(self : rosetta.core.environment.SequenceAnnotation, label : str) -> int resolve_jump(...) from builtins.PyCapsule resolve_jump(self : rosetta.core.environment.SequenceAnnotation, label : str) -> int resolve_seq(...) from builtins.PyCapsule resolve_seq(*args, **kwargs) Overloaded function.   1. resolve_seq(self : rosetta.core.environment.SequenceAnnotation,  : rosetta.core.environment.LocalPosition) -> int   2. resolve_seq(self : rosetta.core.environment.SequenceAnnotation, label : str) -> rosetta.utility.vector1_unsigned_long rm_seq_label(...) from builtins.PyCapsule rm_seq_label(self : rosetta.core.environment.SequenceAnnotation,  : str) -> NoneType