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Rosetta Protocols
2014.16.56682
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Rosetta Protocols
2014.16.56682
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#include <AtomTreeDiffJobInputter.hh>
Public Member Functions | |
| AtomTreeDiffJobInputter () | |
| virtual | ~AtomTreeDiffJobInputter () |
| virtual void | pose_from_job (core::pose::Pose &pose, JobOP job) |
| this function is responsible for filling the pose reference with the pose indicated by the job. The Job object (within its InnerJob) contains a PoseCOP. This function needs to either fill the pose reference from the InnerJob or, on first demand of a pose from that InnerJob, instantiate the pose, hand off a COP to the InnerJob, and fill the reference. This implementation uses pose_from_pdb More... | |
| virtual void | fill_jobs (Jobs &jobs) |
| this function determines what jobs exist from -in::file::silent and -in::file::tags. More... | |
| virtual JobInputterInputSource::Enum | input_source () const |
| Return the type of input source that the AtomTreeDiffJobInputter is currently using. More... | |
| core::pose::PoseOPs const & | all_ref_poses () const |
| Utility function to allow mutatable (!) access to the reference poses of the undelying AtomTreeDiff object. Use with caution. More... | |
 Public Member Functions inherited from protocols::jd2::JobInputter | |
| virtual | ~JobInputter () |
Private Attributes | |
| core::import_pose::atom_tree_diffs::AtomTreeDiff | atom_tree_diff_ |
Additional Inherited Members | |
| Static Public Member Functions inherited from protocols::jd2::JobInputter | |
| static std::string | job_inputter_input_source_to_string (JobInputterInputSource::Enum source) |
| call this with input_source() to get the input source of a particular job inputter More... | |
| Protected Member Functions inherited from protocols::jd2::JobInputter | |
| void | load_pose_into_job (core::pose::Pose const &pose, JobOP job) |
| this function modifies the InnerJob's pose. Access to that pose is via friendship. More... | |
| void | load_pose_into_job (core::pose::PoseCOP pose, JobOP job) |
| this function modifies the InnerJob's pose. Access to that pose is via friendship. More... | |
| virtual core::Size | get_nstruct () const |
| this code is here to restrict the use of inner_job_nonconst (this class is a friend class and can do it) More... | |
This is the simplest implementation of JobInputter, which reads from -s/-l and AtomTree files.
| protocols::jd2::AtomTreeDiffJobInputter::AtomTreeDiffJobInputter | ( | ) |
References protocols::jd2::tr.
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| utility::vector1< core::pose::PoseOP > const & protocols::jd2::AtomTreeDiffJobInputter::all_ref_poses | ( | ) | const |
Utility function to allow mutatable (!) access to the reference poses of the undelying AtomTreeDiff object. Use with caution.
This exists to allow setup on stored reference poses for properties that don't get saved/restored in PDB format, like covalent constraints for enzyme design.
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this function determines what jobs exist from -in::file::silent and -in::file::tags.
this function determines what jobs exist -in:file:atom_tree_diff
Implements protocols::jd2::JobInputter.
References protocols::jd2::Job::add_string_real_pair(), in::file::atom_tree_diff, j, basic::options::OptionKeys::in::file::keep_input_scores, nstruct, basic::options::option, option, runtime_assert, score, tag, in::file::tags, tags, protocols::jd2::tr, user, and utility_exit_with_message.
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Return the type of input source that the AtomTreeDiffJobInputter is currently using.
Implements protocols::jd2::JobInputter.
References protocols::jd2::JobInputterInputSource::ATOM_TREE_FILE.
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this function is responsible for filling the pose reference with the pose indicated by the job. The Job object (within its InnerJob) contains a PoseCOP. This function needs to either fill the pose reference from the InnerJob or, on first demand of a pose from that InnerJob, instantiate the pose, hand off a COP to the InnerJob, and fill the reference. This implementation uses pose_from_pdb
This function will first see if the pose already exists in the Job. If not, it will read it into the pose reference, and hand a COP cloned from that pose to the Job. If the pose pre-exists it just copies the COP's pose into it.
Implements protocols::jd2::JobInputter.
References core::pose::Pose::clear(), protocols::jd2::Job::inner_job(), protocols::jd2::Job::input_tag(), basic::options::OptionKeys::in::file::native, basic::options::option, core::import_pose::pose_from_pdb(), protocols::jd2::tr, user, and utility_exit_with_message.
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private |
1.8.7