util.hh File Reference

#include <core/pose/Pose.fwd.hh>
#include <protocols/filters/Filter.fwd.hh>
#include <protocols/moves/Mover.fwd.hh>
#include <core/types.hh>
#include <basic/datacache/DataMap.hh>
#include <core/pack/task/TaskFactory.fwd.hh>
#include <core/pack/task/operation/TaskOperation.fwd.hh>
#include <core/scoring/ScoreFunction.fwd.hh>
#include <core/kinematics/MoveMap.fwd.hh>
#include <utility/tag/Tag.fwd.hh>
#include <utility/vector1.fwd.hh>
#include <string>
#include <set>
#include <utility/vector1.hh>
#include <basic/Tracer.hh>

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::rosetta_scripts

Functions
utility::vector1 < core::pack::task::operation::TaskOperationOP >	protocols::rosetta_scripts::get_task_operations (utility::tag::TagCOP const tag, basic::datacache::DataMap const &data)
core::pack::task::TaskFactoryOP	protocols::rosetta_scripts::parse_task_operations (utility::tag::TagCOP const tag, basic::datacache::DataMap const &data)
core::pack::task::TaskFactoryOP	protocols::rosetta_scripts::parse_task_operations (utility::tag::TagCOP const tag, basic::datacache::DataMap &data, core::pack::task::TaskFactoryOP &task_factory)
	option to add or refer to a Taskfactory through the datamap, similar to how to add/refer to movemap OPs (EMS) More...
core::pack::task::TaskFactoryOP	protocols::rosetta_scripts::parse_task_operations (std::string const task_list, basic::datacache::DataMap const &data)
core::scoring::ScoreFunctionOP	protocols::rosetta_scripts::parse_score_function (utility::tag::TagCOP tag, std::string const &option_name, basic::datacache::DataMap const &data, std::string const dflt_key="talaris2013")
	Look up the score function defined in the <SCOREFXNS> through the given option. Default to 'talaris2013' by default. More...
core::scoring::ScoreFunctionOP	protocols::rosetta_scripts::parse_score_function (utility::tag::TagCOP tag, basic::datacache::DataMap const &data, std::string const dflt_key="talaris2013")
	Look up the score function defined in the <SCOREFXNS> through the option 'scorefxn='. Default to 'talaris2013' by default. More...
std::string	protocols::rosetta_scripts::get_score_function_name (utility::tag::TagCOP tag, std::string const &option_name)
	Look up the name of assigned score function to the given option. Use this to prevent hard coding default score functions into protocols. More...
std::string	protocols::rosetta_scripts::get_score_function_name (utility::tag::TagCOP tag)
	Look up the name of assigned score function to the 'scorefxn=' option. Use this to prevent hard coding default score functions into protocols. More...
core::pose::PoseOP	protocols::rosetta_scripts::saved_reference_pose (utility::tag::TagCOP in_tag, basic::datacache::DataMap &data_map)
	convenience function to access pointers to poses that will be stored in the data map at an arbitrary point during an RS protocol More...
void	protocols::rosetta_scripts::parse_movemap (utility::tag::TagCOP const in_tag, core::pose::Pose const &pose, core::kinematics::MoveMapOP &mm, basic::datacache::DataMap &data, bool const reset_map)
	variant of parse_movemap that takes in a datamap and searches it for already existing movemaps More...
void	protocols::rosetta_scripts::parse_movemap (utility::tag::TagCOP const in_tag, core::pose::Pose const &pose, core::kinematics::MoveMapOP mm)
protocols::filters::FilterOP	protocols::rosetta_scripts::parse_filter (std::string const filter_name, protocols::filters::Filters_map const &filters)
protocols::moves::MoverOP	protocols::rosetta_scripts::parse_mover (std::string const mover_name, protocols::moves::Movers_map const &movers)
numeric::xyzVector< core::Real >	protocols::rosetta_scripts::parse_xyz_vector (utility::tag::TagCOP const xyz_vector_tag)
	utility function for parsing xyzVector More...
core::Size	protocols::rosetta_scripts::find_nearest_res (core::pose::Pose const &source, core::pose::Pose const &target, core::Size const res, core::Size const chain)
	Return the number of the residue on source that is nearest to res on target. If the distance is greater than 2.0 returns 0 to indicate error. More...
utility::vector1< core::Size >	protocols::rosetta_scripts::residue_packer_states (core::pose::Pose const &pose, core::pack::task::TaskFactoryCOP tf, bool const designable, bool const packable)
	returns a vector containing all the residues with a given packer state according to the TF More...