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| | LegacyKicSampler () |
| | Default constructor. More...
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| |
| std::string | get_name () const override |
| | Return the name of this mover. More...
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| | LoopMover () |
| | Default constructor. More...
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| void | parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data) override |
| | Configure from a RosettaScripts tag. More...
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| |
| void | apply (Pose &pose) override |
| | Sample the pose in the regions specified by get_loops(). More...
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| |
| virtual void | get_children_names (utility::vector1< std::string > &names, std::string indent="") const |
| | Add the names of all the algorithms invoked by this loop mover to the given list. Indentation is used to represent hierarchy. More...
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| |
| bool | was_successful () const |
| | Return true if the previous move was successful. More...
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| |
| void | was_successful (bool value) |
| | Set the success status of a loop mover. More...
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| |
| LoopsOP | get_loops () |
| | Return the loops to be sampled on the next call to apply(). More...
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| |
| LoopsCOP | get_loops () const |
| | Return the loops to be sampled on the next call to apply(). More...
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| Loop const & | get_loop (core::Size index) const |
| | Return the specified loop. More...
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| void | set_loops (LoopsOP loops) |
| | Set the loops to be sampled on the next call to apply(). More...
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| |
| void | set_loops (Loops const &loops) |
| | Set the loops to be sampled on the next call to apply(). More...
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| void | set_loop (Loop const &loop) |
| | Set the loop to be sampled on the next call to apply(). More...
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| |
| template<typename ToolTypeOP > |
| ToolTypeOP | get_tool (std::string key) const |
| | Request a tool from this mover or any of its parents. More...
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| |
| template<typename ToolTypeOP > |
| ToolTypeOP | get_tool (std::string key, ToolTypeOP fallback) const |
| | Request a tool from this mover or any of its parents. More...
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| |
| template<typename ToolTypeOP > |
| ToolTypeOP | set_tool (std::string key, ToolTypeOP value) |
| | Provide a tool for this mover or any of its children to use. More...
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| |
| virtual FoldTreeRequest | request_fold_tree () const |
| | Return an enum representing the kind of fold tree that is compatible with this mover. More...
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| void | trust_fold_tree () |
| | Promise that the calling code will setup a fold tree compatible with request_fold_tree(). If this method is not called, this mover will setup a fold tree on its own every time apply() is called. More...
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| |
| | Mover () |
| |
| virtual MoverOP | create () |
| |
| MoverCOP | get_self_ptr () const |
| |
| MoverOP | get_self_ptr () |
| |
| MoverCAP | get_self_weak_ptr () const |
| |
| MoverAP | get_self_weak_ptr () |
| |
| | Mover (std::string const &type_name) |
| | sets the type for a mover; name_ has been removed (2010/05/14) More...
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| |
| virtual void | test_move (Pose &pose) |
| | : Unit test support function. Apply one move to a given pose. Allows extra test specific functions to be called before applying More...
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| virtual MoverOP | clone () const |
| | Return a clone of the Mover object. More...
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| |
| virtual bool | reinitialize_for_each_job () const |
| | Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on each use. More...
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| |
| virtual bool | reinitialize_for_new_input () const |
| | 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). More...
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| |
| virtual MoverOP | fresh_instance () const |
| | Generates a new Mover object freshly created with the default ctor. More...
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| MoverStatus | get_last_move_status () const |
| | end parser interface, start Job Distributor interface///////////// More...
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| void | reset_status () |
| | 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. More...
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| virtual core::pose::PoseOP | get_additional_output () |
| | Mechanism by which a mover may return multiple output poses from a single input pose. More...
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| void | set_type (std::string const &setting) |
| | Set the 'type' string. More...
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| std::string | get_type () const |
| |
| void | type (const std::string &type_in) |
| | Set the 'type' string. More...
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| std::string const & | type () const |
| | Get the set 'type' string. More...
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| virtual void | set_input_pose (PoseCOP pose) |
| | setter for poses contained for rms More...
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| virtual void | set_native_pose (PoseCOP pose) |
| | setter for native poses contained for rms -— we should get rid of this method? it is widely used, but a bit unsafe More...
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| PoseCOP | get_input_pose () const |
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| PoseCOP | get_native_pose () const |
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| void | set_current_job (protocols::jobdist::BasicJobCOP job) |
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| jobdist::BasicJobCOP | get_current_job () const |
| |
| virtual void | set_current_tag (std::string const &new_tag) |
| |
| std::string | get_current_tag () const |
| | 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. More...
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| virtual void | show (std::ostream &output=std::cout) const |
| | Outputs details about the Mover, including current settings. More...
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| virtual core::Real | last_proposal_density_ratio () |
| |
| virtual void | clear_info () |
| | 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. More...
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| virtual Strings & | info () |
| | non-const accessor More...
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| virtual Strings const & | info () const |
| | const accessor More...
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| virtual bool | mover_provides_citation_info () const |
| | Does this mover provide information about how to cite it? More...
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| |
virtual utility::vector1
< basic::citation_manager::CitationCollectionCOP > | provide_citation_info () const |
| | Provide the citation. More...
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| virtual bool | mover_is_unpublished () const |
| | Does this mover indicate that it is unpublished (and, by extension, that the author should be included in publications resulting from it)? More...
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virtual utility::vector1
< basic::citation_manager::UnpublishedModuleInfoCOP > | provide_authorship_info_for_unpublished () const |
| | Provide a list of authors and their e-mail addresses, as strings. More...
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| |
Apply the legacy KinematicMover.
The old KinematicMover works just as well as the new KicMover, but it is not written as well and is therefore much harder to understand and maintain. Largely for this reason, development will shift towards the new implementation and the old one will grow more and more out of date. This sampler was written to compare the two algorithms and is only meant to be a debugging tool. However, it may be useful in the short term while features like next-gen KIC are still being ported to the new implementation.
Public Member Functions inherited from protocols::loop_modeling::LoopMover
1.8.7