movers¶
Bindings for protocols::protein_interface_design::movers namespace
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak¶
Bases:
Mover
a mover that sets a chainbreak in a specified position
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, : pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::operator=(const class protocols::protein_interface_design::movers::AddChainBreak &) –> class protocols::protein_interface_design::movers::AddChainBreak &
- automatic_distance_cutoff(*args, **kwargs)¶
Overloaded function.
automatic_distance_cutoff(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) -> float
C++: protocols::protein_interface_design::movers::AddChainBreak::automatic_distance_cutoff() const –> double
automatic_distance_cutoff(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, a: float) -> None
C++: protocols::protein_interface_design::movers::AddChainBreak::automatic_distance_cutoff(const double) –> void
- change_conformation(*args, **kwargs)¶
Overloaded function.
change_conformation(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, c: bool) -> None
C++: protocols::protein_interface_design::movers::AddChainBreak::change_conformation(const bool) –> void
change_conformation(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) -> bool
C++: protocols::protein_interface_design::movers::AddChainBreak::change_conformation() const –> bool
- change_foldtree(*args, **kwargs)¶
Overloaded function.
change_foldtree(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, c: bool) -> None
C++: protocols::protein_interface_design::movers::AddChainBreak::change_foldtree(const bool) –> void
change_foldtree(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) -> bool
C++: protocols::protein_interface_design::movers::AddChainBreak::change_foldtree() const –> bool
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- find_automatically(*args, **kwargs)¶
Overloaded function.
find_automatically(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) -> bool
C++: protocols::protein_interface_design::movers::AddChainBreak::find_automatically() const –> bool
find_automatically(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, b: bool) -> None
C++: protocols::protein_interface_design::movers::AddChainBreak::find_automatically(const bool) –> void
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) str ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::AddChainBreak::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- remove(*args, **kwargs)¶
Overloaded function.
remove(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) -> bool
C++: protocols::protein_interface_design::movers::AddChainBreak::remove() const –> bool
remove(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, r: bool) -> None
C++: protocols::protein_interface_design::movers::AddChainBreak::remove(const bool) –> void
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- resnum(*args, **kwargs)¶
Overloaded function.
resnum(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak, r: str) -> None
C++: protocols::protein_interface_design::movers::AddChainBreak::resnum(const std::string &) –> void
resnum(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreak) -> str
C++: protocols::protein_interface_design::movers::AddChainBreak::resnum() const –> std::string
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator ¶
C++: protocols::protein_interface_design::movers::AddChainBreakCreator::operator=(const class protocols::protein_interface_design::movers::AddChainBreakCreator &) –> class protocols::protein_interface_design::movers::AddChainBreakCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::AddChainBreakCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator) str ¶
C++: protocols::protein_interface_design::movers::AddChainBreakCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddChainBreakCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::AddChainBreakCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots¶
Bases:
Mover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots, : pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots) pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::operator=(const class protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots &) –> class protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots &
- chain(*args, **kwargs)¶
Overloaded function.
chain(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots) -> int
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::chain() const –> unsigned long
chain(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots, c: int) -> None
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::chain(const unsigned long) –> void
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- coord_sdev(*args, **kwargs)¶
Overloaded function.
coord_sdev(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots) -> float
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::coord_sdev() const –> double
coord_sdev(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots, sdev: float) -> None
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::coord_sdev(const double) –> void
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots) str ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_residue(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspots, residues: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) None ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots::set_residue(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspotsCreator::operator=(const class protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspotsCreator &) –> class protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspotsCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspotsCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator) str ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspotsCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.AddSidechainConstraintsToHotspotsCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspotsCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover¶
Bases:
DesignRepackMover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::operator=(const class protocols::protein_interface_design::movers::BackrubDDMover &) –> class protocols::protein_interface_design::movers::BackrubDDMover &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clear_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
- after fiddling with a task from outside this mover, clear it, or else, on the next iteration through
the mover the changes will be remembered
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task() –> void
- clear_task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task_factory() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- design(*args, **kwargs)¶
Overloaded function.
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, des: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::design(const bool) –> void
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::design() const –> bool
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMover) str ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- static get_xsd_complex_type() utility::tag::XMLSchemaComplexTypeGenerator ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::get_xsd_complex_type() –> class std::shared_ptr<class utility::tag::XMLSchemaComplexTypeGenerator>
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- min_bb(*args, **kwargs)¶
Overloaded function.
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_bb: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_bb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb_set() const –> bool
- min_rb(*args, **kwargs)¶
Overloaded function.
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: pyrosetta.rosetta.utility.vector1_bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const class utility::vector1<bool, class std::allocator<bool> > &) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: bool) -> None
in most cases, there would only be one rb dof making it useful to have a non-vector accessor to min_rb_. However, if the pose has multiple jumps, setting min_rb_ in this way might cause trouble in other parts of the code.
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const bool) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb() const –> const class utility::vector1<bool, class std::allocator<bool> > &
- min_rb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb_set() const –> bool
- min_sc(*args, **kwargs)¶
Overloaded function.
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_sc: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_sc_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc_set() const –> bool
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- optimize_foldtree(*args, **kwargs)¶
Overloaded function.
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree() const –> bool
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, opt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree(const bool) –> void
- parse_my_tag(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, : pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- prevent_repacking(*args, **kwargs)¶
Overloaded function.
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::BackrubDDMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- restrict_to_repacking(*args, **kwargs)¶
Overloaded function.
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_minimize() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_repack() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_minimize(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_repack(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- setup_packer_and_movemap(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::setup_packer_and_movemap(const class core::pose::Pose &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- target_residues(*args, **kwargs)¶
Overloaded function.
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, setting: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
Replace the current target_residue setting with the passed residue selector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.select.residue_selector.ResidueSelector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >
- task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.pack.task.PackerTask ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::task() –> class std::shared_ptr<class core::pack::task::PackerTask> &
- task_factory(*args, **kwargs)¶
Overloaded function.
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.core.pack.task.TaskFactory) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory(class std::shared_ptr<class core::pack::task::TaskFactory>) –> void
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.pack.task.TaskFactory
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory() –> class std::shared_ptr<class core::pack::task::TaskFactory> &
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- use_preset_task(*args, **kwargs)¶
Overloaded function.
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, bt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task(const bool) –> void
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task() const –> bool
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator ¶
C++: protocols::protein_interface_design::movers::BackrubDDMoverCreator::operator=(const class protocols::protein_interface_design::movers::BackrubDDMoverCreator &) –> class protocols::protein_interface_design::movers::BackrubDDMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BackrubDDMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::BackrubDDMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BackrubDDMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::BackrubDDMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover¶
Bases:
Mover
remove all HotspotCst’s from the pose except the best X
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::operator=(const class protocols::protein_interface_design::movers::BestHotspotCstMover &) –> class protocols::protein_interface_design::movers::BestHotspotCstMover &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover) str ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMover, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMoverCreator::operator=(const class protocols::protein_interface_design::movers::BestHotspotCstMoverCreator &) –> class protocols::protein_interface_design::movers::BestHotspotCstMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BestHotspotCstMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::BestHotspotCstMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose¶
Bases:
DesignRepackMover
designs alanine residues in place of the residue identities at the interface. Retains interface glycines and prolines.
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose, : pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose) pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::operator=(const class protocols::protein_interface_design::movers::BuildAlaPose &) –> class protocols::protein_interface_design::movers::BuildAlaPose &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clear_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
- after fiddling with a task from outside this mover, clear it, or else, on the next iteration through
the mover the changes will be remembered
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task() –> void
- clear_task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task_factory() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- design(*args, **kwargs)¶
Overloaded function.
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, des: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::design(const bool) –> void
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::design() const –> bool
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose) str ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- static get_xsd_complex_type() utility::tag::XMLSchemaComplexTypeGenerator ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::get_xsd_complex_type() –> class std::shared_ptr<class utility::tag::XMLSchemaComplexTypeGenerator>
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- min_bb(*args, **kwargs)¶
Overloaded function.
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_bb: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_bb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb_set() const –> bool
- min_rb(*args, **kwargs)¶
Overloaded function.
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: pyrosetta.rosetta.utility.vector1_bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const class utility::vector1<bool, class std::allocator<bool> > &) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: bool) -> None
in most cases, there would only be one rb dof making it useful to have a non-vector accessor to min_rb_. However, if the pose has multiple jumps, setting min_rb_ in this way might cause trouble in other parts of the code.
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const bool) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb() const –> const class utility::vector1<bool, class std::allocator<bool> > &
- min_rb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb_set() const –> bool
- min_sc(*args, **kwargs)¶
Overloaded function.
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_sc: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_sc_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc_set() const –> bool
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- optimize_foldtree(*args, **kwargs)¶
Overloaded function.
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree() const –> bool
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, opt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree(const bool) –> void
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPose, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- prevent_repacking(*args, **kwargs)¶
Overloaded function.
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::BuildAlaPose::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- restrict_to_repacking(*args, **kwargs)¶
Overloaded function.
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_minimize() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_repack() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_minimize(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_repack(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- setup_packer_and_movemap(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::setup_packer_and_movemap(const class core::pose::Pose &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- target_residues(*args, **kwargs)¶
Overloaded function.
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, setting: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
Replace the current target_residue setting with the passed residue selector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.select.residue_selector.ResidueSelector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >
- task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.pack.task.PackerTask ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::task() –> class std::shared_ptr<class core::pack::task::PackerTask> &
- task_factory(*args, **kwargs)¶
Overloaded function.
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.core.pack.task.TaskFactory) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory(class std::shared_ptr<class core::pack::task::TaskFactory>) –> void
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.pack.task.TaskFactory
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory() –> class std::shared_ptr<class core::pack::task::TaskFactory> &
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- use_preset_task(*args, **kwargs)¶
Overloaded function.
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, bt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task(const bool) –> void
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task() const –> bool
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPoseCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPoseCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPoseCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPoseCreator ¶
C++: protocols::protein_interface_design::movers::BuildAlaPoseCreator::operator=(const class protocols::protein_interface_design::movers::BuildAlaPoseCreator &) –> class protocols::protein_interface_design::movers::BuildAlaPoseCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPoseCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::BuildAlaPoseCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.BuildAlaPoseCreator) str ¶
C++: protocols::protein_interface_design::movers::BuildAlaPoseCreator::keyname() const –> std::string
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack¶
Bases:
pybind11_object
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack, : pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack) pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack ¶
C++: protocols::protein_interface_design::movers::CoordinateConstraintStack::operator=(const class protocols::protein_interface_design::movers::CoordinateConstraintStack &) –> class protocols::protein_interface_design::movers::CoordinateConstraintStack &
- coord_csts(*args, **kwargs)¶
Overloaded function.
coord_csts(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack) -> pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t
C++: protocols::protein_interface_design::movers::CoordinateConstraintStack::coord_csts() const –> const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > > &
coord_csts(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack, setting: pyrosetta.rosetta.utility.vector1_std_shared_ptr_const_core_scoring_constraints_Constraint_t) -> None
C++: protocols::protein_interface_design::movers::CoordinateConstraintStack::coord_csts(const class utility::vector1<class std::shared_ptr<const class core::scoring::constraints::Constraint>, class std::allocator<class std::shared_ptr<const class core::scoring::constraints::Constraint> > > &) –> void
- parent(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack) pyrosetta.rosetta.protocols.protein_interface_design.movers.CoordinateConstraintStack ¶
C++: protocols::protein_interface_design::movers::CoordinateConstraintStack::parent() const –> class std::shared_ptr<class protocols::protein_interface_design::movers::CoordinateConstraintStack>
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds¶
Bases:
DesignRepackMover
used to design a protein to hbond preferentially to a set of target residues on the partner. Hbonds involving backbone or sidechain on the target can be counted, and whether to design donors or acceptors can also be defined.
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds) pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::operator=(const class protocols::protein_interface_design::movers::DesignMinimizeHbonds &) –> class protocols::protein_interface_design::movers::DesignMinimizeHbonds &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clear_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
- after fiddling with a task from outside this mover, clear it, or else, on the next iteration through
the mover the changes will be remembered
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task() –> void
- clear_task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task_factory() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- design(*args, **kwargs)¶
Overloaded function.
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, des: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::design(const bool) –> void
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::design() const –> bool
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds) str ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- static get_xsd_complex_type() utility::tag::XMLSchemaComplexTypeGenerator ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::get_xsd_complex_type() –> class std::shared_ptr<class utility::tag::XMLSchemaComplexTypeGenerator>
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- min_bb(*args, **kwargs)¶
Overloaded function.
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_bb: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_bb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb_set() const –> bool
- min_rb(*args, **kwargs)¶
Overloaded function.
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: pyrosetta.rosetta.utility.vector1_bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const class utility::vector1<bool, class std::allocator<bool> > &) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: bool) -> None
in most cases, there would only be one rb dof making it useful to have a non-vector accessor to min_rb_. However, if the pose has multiple jumps, setting min_rb_ in this way might cause trouble in other parts of the code.
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const bool) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb() const –> const class utility::vector1<bool, class std::allocator<bool> > &
- min_rb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb_set() const –> bool
- min_sc(*args, **kwargs)¶
Overloaded function.
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_sc: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_sc_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc_set() const –> bool
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- optimize_foldtree(*args, **kwargs)¶
Overloaded function.
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree() const –> bool
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, opt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree(const bool) –> void
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbonds, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- prevent_repacking(*args, **kwargs)¶
Overloaded function.
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbonds::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- restrict_to_repacking(*args, **kwargs)¶
Overloaded function.
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_minimize() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_repack() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_minimize(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_repack(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- setup_packer_and_movemap(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::setup_packer_and_movemap(const class core::pose::Pose &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- target_residues(*args, **kwargs)¶
Overloaded function.
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, setting: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
Replace the current target_residue setting with the passed residue selector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.select.residue_selector.ResidueSelector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >
- task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.pack.task.PackerTask ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::task() –> class std::shared_ptr<class core::pack::task::PackerTask> &
- task_factory(*args, **kwargs)¶
Overloaded function.
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.core.pack.task.TaskFactory) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory(class std::shared_ptr<class core::pack::task::TaskFactory>) –> void
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.pack.task.TaskFactory
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory() –> class std::shared_ptr<class core::pack::task::TaskFactory> &
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- use_preset_task(*args, **kwargs)¶
Overloaded function.
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, bt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task(const bool) –> void
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task() const –> bool
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbondsCreator::operator=(const class protocols::protein_interface_design::movers::DesignMinimizeHbondsCreator &) –> class protocols::protein_interface_design::movers::DesignMinimizeHbondsCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbondsCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator) str ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbondsCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DesignMinimizeHbondsCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DesignMinimizeHbondsCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover¶
Bases:
DesignRepackMover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::operator=(const class protocols::protein_interface_design::movers::DisulfideMover &) –> class protocols::protein_interface_design::movers::DisulfideMover &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clear_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
- after fiddling with a task from outside this mover, clear it, or else, on the next iteration through
the mover the changes will be remembered
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task() –> void
- clear_task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task_factory() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- design(*args, **kwargs)¶
Overloaded function.
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, des: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::design(const bool) –> void
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::design() const –> bool
- static disulfide_list(pose: pyrosetta.rosetta.core.pose.Pose, targets: pyrosetta.rosetta.utility.vector1_unsigned_long, rb_jump: int, disulfides: pyrosetta.rosetta.utility.vector1_std_pair_unsigned_long_unsigned_long_t) None ¶
Find all residues which could disulfide bond to a target
- pairs of residues (target, host) from the target protein and the
docking protein.
- This is implemented as a static method so that DisulfidedFilter
can share code.
C++: protocols::protein_interface_design::movers::DisulfideMover::disulfide_list(const class core::pose::Pose &, const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &, unsigned long, class utility::vector1<struct std::pair<unsigned long, unsigned long>, class std::allocator<struct std::pair<unsigned long, unsigned long> > > &) –> void
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover) str ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- static get_xsd_complex_type() utility::tag::XMLSchemaComplexTypeGenerator ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::get_xsd_complex_type() –> class std::shared_ptr<class utility::tag::XMLSchemaComplexTypeGenerator>
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- min_bb(*args, **kwargs)¶
Overloaded function.
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_bb: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_bb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb_set() const –> bool
- min_rb(*args, **kwargs)¶
Overloaded function.
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: pyrosetta.rosetta.utility.vector1_bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const class utility::vector1<bool, class std::allocator<bool> > &) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: bool) -> None
in most cases, there would only be one rb dof making it useful to have a non-vector accessor to min_rb_. However, if the pose has multiple jumps, setting min_rb_ in this way might cause trouble in other parts of the code.
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const bool) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb() const –> const class utility::vector1<bool, class std::allocator<bool> > &
- min_rb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb_set() const –> bool
- min_sc(*args, **kwargs)¶
Overloaded function.
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_sc: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_sc_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc_set() const –> bool
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- optimize_foldtree(*args, **kwargs)¶
Overloaded function.
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree() const –> bool
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, opt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree(const bool) –> void
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMover, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- prevent_repacking(*args, **kwargs)¶
Overloaded function.
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DisulfideMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- restrict_to_repacking(*args, **kwargs)¶
Overloaded function.
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_minimize() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_repack() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_minimize(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::set_scorefxn_repack(class std::shared_ptr<const class core::scoring::ScoreFunction>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- setup_packer_and_movemap(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::setup_packer_and_movemap(const class core::pose::Pose &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- target_residues(*args, **kwargs)¶
Overloaded function.
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, setting: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
Replace the current target_residue setting with the passed residue selector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.select.residue_selector.ResidueSelector
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues() const –> class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>
target_residues(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::target_residues(const class core::pose::Pose &) const –> class utility::vector1<unsigned long, class std::allocator<unsigned long> >
- task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.pack.task.PackerTask ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::task() –> class std::shared_ptr<class core::pack::task::PackerTask> &
- task_factory(*args, **kwargs)¶
Overloaded function.
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.core.pack.task.TaskFactory) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory(class std::shared_ptr<class core::pack::task::TaskFactory>) –> void
task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.core.pack.task.TaskFactory
C++: protocols::calc_taskop_movers::DesignRepackMover::task_factory() –> class std::shared_ptr<class core::pack::task::TaskFactory> &
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- use_preset_task(*args, **kwargs)¶
Overloaded function.
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, bt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task(const bool) –> void
use_preset_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::use_preset_task() const –> bool
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator ¶
C++: protocols::protein_interface_design::movers::DisulfideMoverCreator::operator=(const class protocols::protein_interface_design::movers::DisulfideMoverCreator &) –> class protocols::protein_interface_design::movers::DisulfideMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DisulfideMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::DisulfideMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DisulfideMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DisulfideMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains¶
Bases:
Mover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains) pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::operator=(const class protocols::protein_interface_design::movers::DockAndRetrieveSidechains &) –> class protocols::protein_interface_design::movers::DockAndRetrieveSidechains &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains) str ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechains, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechains::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechainsCreator::operator=(const class protocols::protein_interface_design::movers::DockAndRetrieveSidechainsCreator &) –> class protocols::protein_interface_design::movers::DockAndRetrieveSidechainsCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechainsCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator) str ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechainsCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockAndRetrieveSidechainsCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DockAndRetrieveSidechainsCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover¶
Bases:
Mover
A mover to mutate a single residue
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::operator=(const class protocols::protein_interface_design::movers::DockWithHotspotMover &) –> class protocols::protein_interface_design::movers::DockWithHotspotMover &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover) str ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMover, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMoverCreator::operator=(const class protocols::protein_interface_design::movers::DockWithHotspotMoverCreator &) –> class protocols::protein_interface_design::movers::DockWithHotspotMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.DockWithHotspotMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::DockWithHotspotMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle¶
Bases:
Mover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle, : pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle) pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::operator=(const class protocols::protein_interface_design::movers::FavorNativeResiduePreCycle &) –> class protocols::protein_interface_design::movers::FavorNativeResiduePreCycle &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle) str ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycle, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycle::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycleCreator::operator=(const class protocols::protein_interface_design::movers::FavorNativeResiduePreCycleCreator &) –> class protocols::protein_interface_design::movers::FavorNativeResiduePreCycleCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycleCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator) str ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycleCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNativeResiduePreCycleCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::FavorNativeResiduePreCycleCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle¶
Bases:
Mover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle, : pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle) pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::operator=(const class protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle &) –> class protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle) str ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycle, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycleCreator::operator=(const class protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycleCreator &) –> class protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycleCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycleCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator) str ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycleCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.FavorNonNativeResiduePreCycleCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycleCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover¶
Bases:
Mover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::operator=(const class protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover &) –> class protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover &
- chain(*args, **kwargs)¶
Overloaded function.
chain(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, c: int) -> None
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::chain(const unsigned long) –> void
chain(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) -> int
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::chain() const –> unsigned long
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- ddG_threshold(*args, **kwargs)¶
Overloaded function.
ddG_threshold(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) -> float
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::ddG_threshold() const –> double
ddG_threshold(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, : float) -> None
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::ddG_threshold(const double) –> void
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) str ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_residues(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, pose: pyrosetta.rosetta.core.pose.Pose) pyrosetta.rosetta.std.set_unsigned_long_t ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::get_residues(const class core::pose::Pose &) const –> class std::set<unsigned long, struct std::less<unsigned long>, class std::allocator<unsigned long> >
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- interface_radius(*args, **kwargs)¶
Overloaded function.
interface_radius(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, rad: float) -> None
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::interface_radius(const double) –> void
interface_radius(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) -> float
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::interface_radius() const –> double
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- scorefxn(*args, **kwargs)¶
Overloaded function.
scorefxn(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover) -> pyrosetta.rosetta.core.scoring.ScoreFunction
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::scorefxn() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
scorefxn(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, scorefxn: pyrosetta.rosetta.core.scoring.ScoreFunction) -> None
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::scorefxn(class std::shared_ptr<class core::scoring::ScoreFunction>) –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_residues(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMover, residues: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) None ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover::set_residues(class std::shared_ptr<const class core::select::residue_selector::ResidueSelector>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMoverCreator::operator=(const class protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMoverCreator &) –> class protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotDisjointedFoldTreeMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover¶
Bases:
Mover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::operator=(const class protocols::protein_interface_design::movers::HotspotHasherMover &) –> class protocols::protein_interface_design::movers::HotspotHasherMover &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover) str ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMover, tag: pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMoverCreator::operator=(const class protocols::protein_interface_design::movers::HotspotHasherMoverCreator &) –> class protocols::protein_interface_design::movers::HotspotHasherMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.HotspotHasherMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::HotspotHasherMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover¶
Bases:
Mover
a pure virtual base class for movers which redesign and repack the interface
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover, : pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover) pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::operator=(const class protocols::protein_interface_design::movers::InterfaceRecapitulationMover &) –> class protocols::protein_interface_design::movers::InterfaceRecapitulationMover &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover) str ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_reference_pose(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::get_reference_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover, : pyrosetta.rosetta.utility.tag.Tag, : pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_reference_pose(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMover, : pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMover::set_reference_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_type(self: pyrosetta.rosetta.protocols.moves.Mover, setting: str) None ¶
Set the ‘type’ string
C++: protocols::moves::Mover::set_type(const std::string &) –> void
- show(*args, **kwargs)¶
Overloaded function.
show(self: pyrosetta.rosetta.protocols.moves.Mover) -> None
show(self: pyrosetta.rosetta.protocols.moves.Mover, output: pyrosetta.rosetta.std.ostream) -> None
Outputs details about the Mover, including current settings.
C++: protocols::moves::Mover::show(std::ostream &) const –> void
- test_move(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
- : Unit test support function. Apply one move to a given pose.
Allows extra test specific functions to be called before applying
C++: protocols::moves::Mover::test_move(class core::pose::Pose &) –> void
- type(*args, **kwargs)¶
Overloaded function.
type(self: pyrosetta.rosetta.protocols.moves.Mover, type_in: str) -> None
Set the ‘type’ string
C++: protocols::moves::Mover::type(const std::string &) –> void
type(self: pyrosetta.rosetta.protocols.moves.Mover) -> str
Get the set ‘type’ string
C++: protocols::moves::Mover::type() const –> const std::string &
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator¶
Bases:
MoverCreator
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator, : pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator) pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMoverCreator::operator=(const class protocols::protein_interface_design::movers::InterfaceRecapitulationMoverCreator &) –> class protocols::protein_interface_design::movers::InterfaceRecapitulationMoverCreator &
- create_mover(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMoverCreator::create_mover() const –> class std::shared_ptr<class protocols::moves::Mover>
- keyname(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator) str ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMoverCreator::keyname() const –> std::string
- provide_xml_schema(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.InterfaceRecapitulationMoverCreator, xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::InterfaceRecapitulationMoverCreator::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) const –> void
- class pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder¶
Bases:
DesignRepackMover
- apply(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
C++: protocols::protein_interface_design::movers::LoopFinder::apply(class core::pose::Pose &) –> void
- assign(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder, : pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder) pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder ¶
C++: protocols::protein_interface_design::movers::LoopFinder::operator=(const class protocols::protein_interface_design::movers::LoopFinder &) –> class protocols::protein_interface_design::movers::LoopFinder &
- clear_info(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
C++: protocols::moves::Mover::clear_info() –> void
- clear_task(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
- after fiddling with a task from outside this mover, clear it, or else, on the next iteration through
the mover the changes will be remembered
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task() –> void
- clear_task_factory(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) None ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::clear_task_factory() –> void
- clone(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::LoopFinder::clone() const –> class std::shared_ptr<class protocols::moves::Mover>
- create(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::create() –> class std::shared_ptr<class protocols::moves::Mover>
- design(*args, **kwargs)¶
Overloaded function.
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, des: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::design(const bool) –> void
design(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::design() const –> bool
- fresh_instance(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::protein_interface_design::movers::LoopFinder::fresh_instance() const –> class std::shared_ptr<class protocols::moves::Mover>
- get_additional_output(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
fpd
Mechanism by which a mover may return multiple output poses from a single input pose.
Supported in JD2. Will attempt to grab additional poses until a nullptr is returned.
C++: protocols::moves::Mover::get_additional_output() –> class std::shared_ptr<class core::pose::Pose>
- get_current_job(self: pyrosetta.rosetta.protocols.moves.Mover) protocols::jobdist::BasicJob ¶
C++: protocols::moves::Mover::get_current_job() const –> class std::shared_ptr<const class protocols::jobdist::BasicJob>
- get_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
- A tag is a unique identifier used to identify structures produced
by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
C++: protocols::moves::Mover::get_current_tag() const –> std::string
- get_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_input_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_last_move_status(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.MoverStatus ¶
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say “that run was no good, skip it” then use the protected last_move_status(MoverStatus) to change the value that this function will return.
C++: protocols::moves::Mover::get_last_move_status() const –> enum protocols::moves::MoverStatus
- get_name(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder) str ¶
C++: protocols::protein_interface_design::movers::LoopFinder::get_name() const –> std::string
- get_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.core.pose.Pose ¶
C++: protocols::moves::Mover::get_native_pose() const –> class std::shared_ptr<const class core::pose::Pose>
- get_self_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.protocols.moves.Mover ¶
C++: protocols::moves::Mover::get_self_ptr() –> class std::shared_ptr<class protocols::moves::Mover>
- get_self_weak_ptr(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.weak_ptr_protocols_moves_Mover_t ¶
C++: protocols::moves::Mover::get_self_weak_ptr() –> class std::weak_ptr<class protocols::moves::Mover>
- get_type(self: pyrosetta.rosetta.protocols.moves.Mover) str ¶
C++: protocols::moves::Mover::get_type() const –> std::string
- static get_xsd_complex_type() utility::tag::XMLSchemaComplexTypeGenerator ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::get_xsd_complex_type() –> class std::shared_ptr<class utility::tag::XMLSchemaComplexTypeGenerator>
- info(self: pyrosetta.rosetta.protocols.moves.Mover) pyrosetta.rosetta.std.list_std_string_t ¶
non-const accessor
C++: protocols::moves::Mover::info() –> class std::list<std::string, class std::allocator<std::string > > &
- last_proposal_density_ratio(self: pyrosetta.rosetta.protocols.moves.Mover) float ¶
C++: protocols::moves::Mover::last_proposal_density_ratio() –> double
- min_bb(*args, **kwargs)¶
Overloaded function.
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_bb: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_bb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_bb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_bb_set() const –> bool
- min_rb(*args, **kwargs)¶
Overloaded function.
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: pyrosetta.rosetta.utility.vector1_bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const class utility::vector1<bool, class std::allocator<bool> > &) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_rb: bool) -> None
in most cases, there would only be one rb dof making it useful to have a non-vector accessor to min_rb_. However, if the pose has multiple jumps, setting min_rb_ in this way might cause trouble in other parts of the code.
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb(const bool) –> void
min_rb(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb() const –> const class utility::vector1<bool, class std::allocator<bool> > &
- min_rb_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_rb_set() const –> bool
- min_sc(*args, **kwargs)¶
Overloaded function.
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, min_sc: pyrosetta.rosetta.core.select.residue_selector.ResidueSelector) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(class std::shared_ptr<class core::select::residue_selector::ResidueSelector>) –> void
min_sc(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, pose: pyrosetta.rosetta.core.pose.Pose) -> pyrosetta.rosetta.utility.vector1_bool
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc(const class core::pose::Pose &) const –> class utility::vector1<bool, class std::allocator<bool> >
- min_sc_set(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) bool ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::min_sc_set() const –> bool
- static mover_name() str ¶
C++: protocols::protein_interface_design::movers::LoopFinder::mover_name() –> std::string
- static name() str ¶
C++: protocols::moves::Mover::name() –> std::string
- optimize_foldtree(*args, **kwargs)¶
Overloaded function.
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> bool
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree() const –> bool
optimize_foldtree(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, opt: bool) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::optimize_foldtree(const bool) –> void
- parse_my_tag(self: pyrosetta.rosetta.protocols.protein_interface_design.movers.LoopFinder, tag: pyrosetta.rosetta.utility.tag.Tag, data: pyrosetta.rosetta.basic.datacache.DataMap) None ¶
C++: protocols::protein_interface_design::movers::LoopFinder::parse_my_tag(class std::shared_ptr<const class utility::tag::Tag>, class basic::datacache::DataMap &) –> void
- prevent_repacking(*args, **kwargs)¶
Overloaded function.
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
prevent_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::prevent_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- provide_citation_info(self: pyrosetta.rosetta.protocols.moves.Mover, : pyrosetta.rosetta.basic.citation_manager.CitationCollectionList) None ¶
- Provide citations to the passed CitationCollectionList
Subclasses should add the info for themselves and any other classes they use.
The default implementation of this function does nothing. It may be overriden by movers wishing to provide citation information.
C++: protocols::moves::Mover::provide_citation_info(class basic::citation_manager::CitationCollectionList &) const –> void
- static provide_xml_schema(xsd: utility::tag::XMLSchemaDefinition) None ¶
C++: protocols::protein_interface_design::movers::LoopFinder::provide_xml_schema(class utility::tag::XMLSchemaDefinition &) –> void
- static register_options() None ¶
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
C++: protocols::moves::Mover::register_options() –> void
- reinitialize_for_each_job(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be freshly regenerated on
each use.
C++: protocols::moves::Mover::reinitialize_for_each_job() const –> bool
- reinitialize_for_new_input(self: pyrosetta.rosetta.protocols.moves.Mover) bool ¶
- Inform the Job Distributor (August ‘08 vintage) whether this object needs to be regenerated when the input
pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
C++: protocols::moves::Mover::reinitialize_for_new_input() const –> bool
- reset_status(self: pyrosetta.rosetta.protocols.moves.Mover) None ¶
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
C++: protocols::moves::Mover::reset_status() –> void
- restrict_to_repacking(*args, **kwargs)¶
Overloaded function.
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover, p: pyrosetta.rosetta.utility.vector1_unsigned_long) -> None
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking(const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &) –> void
restrict_to_repacking(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) -> pyrosetta.rosetta.utility.vector1_unsigned_long
C++: protocols::calc_taskop_movers::DesignRepackMover::restrict_to_repacking() const –> const class utility::vector1<unsigned long, class std::allocator<unsigned long> > &
- scorefxn_minimize(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_minimize() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- scorefxn_repack(self: pyrosetta.rosetta.protocols.calc_taskop_movers.DesignRepackMover) pyrosetta.rosetta.core.scoring.ScoreFunction ¶
C++: protocols::calc_taskop_movers::DesignRepackMover::scorefxn_repack() const –> class std::shared_ptr<class core::scoring::ScoreFunction>
- set_current_job(self: pyrosetta.rosetta.protocols.moves.Mover, job: protocols::jobdist::BasicJob) None ¶
C++: protocols::moves::Mover::set_current_job(class std::shared_ptr<const class protocols::jobdist::BasicJob>) –> void
- set_current_tag(self: pyrosetta.rosetta.protocols.moves.Mover, new_tag: str) None ¶
C++: protocols::moves::Mover::set_current_tag(const std::string &) –> void
- set_input_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for poses contained for rms
C++: protocols::moves::Mover::set_input_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
- set_native_pose(self: pyrosetta.rosetta.protocols.moves.Mover, pose: pyrosetta.rosetta.core.pose.Pose) None ¶
setter for native poses contained for rms —- we should get rid of this method? it is widely used, but a bit unsafe
C++: protocols::moves::Mover::set_native_pose(class std::shared_ptr<const class core::pose::Pose>) –> void
<