#include <AtomTreeDiffJobInputter.hh>
Public Member Functions | |
| AtomTreeDiffJobInputter () | |
| ~AtomTreeDiffJobInputter () override | |
| void | pose_from_job (core::pose::Pose &pose, JobOP job) override |
| 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... | |
| void | fill_jobs (JobsContainer &jobs) override |
| this function determines what jobs exist from -in::file::silent and -in::file::tags. More... | |
| JobInputterInputSource::Enum | input_source () const override |
| 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 | |
| ~JobInputter () override | |
| JobInputterCOP | get_self_ptr () const |
| Get self const owning pointers. More... | |
| JobInputterOP | get_self_ptr () |
| Get self owning pointers. More... | |
| JobInputterCAP | get_self_weak_ptr () const |
| Get self const weak pointers. More... | |
| JobInputterAP | get_self_weak_ptr () |
| Get self weak pointers. More... | |
| virtual void | update_jobs_list (JobsContainerOP jobs) |
| This function is only called by certain JobInputters to update the jobs list after it has already been created. More... | |
| virtual bool | updates_jobs_list () const |
| Does this type of JobInputter update the jobs list? More... | |
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... | |
Detailed Description
This is the simplest implementation of JobInputter, which reads from -s/-l and AtomTree files.
Constructor & Destructor Documentation
◆ AtomTreeDiffJobInputter()
| protocols::jd2::AtomTreeDiffJobInputter::AtomTreeDiffJobInputter | ( | ) |
References protocols::jd2::tr().
◆ ~AtomTreeDiffJobInputter()
|
overridedefault |
Member Function Documentation
◆ all_ref_poses()
| 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.
◆ fill_jobs()
|
overridevirtual |
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::JobsContainer::clear(), protocols::jd2::JobsContainer::push_back(), protocols::hybridization::score, and protocols::jd2::tr().
◆ input_source()
|
overridevirtual |
Return the type of input source that the AtomTreeDiffJobInputter is currently using.
- Returns
- Always ATOM_TREE_FILE.
Implements protocols::jd2::JobInputter.
References protocols::jd2::JobInputterInputSource::ATOM_TREE_FILE.
◆ pose_from_job()
|
overridevirtual |
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(), core::import_pose::PDB_file, core::import_pose::pose_from_file(), and protocols::jd2::tr().
Member Data Documentation
◆ atom_tree_diff_
|
private |
The documentation for this class was generated from the following files:
- src/protocols/jd2/AtomTreeDiffJobInputter.hh
- src/protocols/jd2/AtomTreeDiffJobInputter.cc
