protocols::abinitio::Application Class Reference

Public Member Functions
	Application ()
	@detail c'stor - nothing special More...
void	setup ()
void	fix_chainbreaks (pose::Pose &pose)
void	copy_native_structure (core::pose::Pose &extended_pose)
void	run ()

Static Public Member Functions
static void	register_options ()

Private Attributes
pose::PoseOP	native_pose_

Constructor & Destructor Documentation

Application()

protocols::abinitio::Application::Application

(

)

@detail c'stor - nothing special

Member Function Documentation

copy_native_structure()

void protocols::abinitio::Application::copy_native_structure

(

core::pose::Pose &

extended_pose

)

@detail called by setup_fold() if option[ start_native ] is active the routine defines a fragment of the length of the structure steals the fragment from the native and applies it to the decoy native needs to be idealized!

References basic::options::OptionKeys::in::file::extended_pose, basic::Tracer::Info, min(), native_pose_, make_symmdef_file_denovo::pos, and protocols::abinitio::tr.

fix_chainbreaks()

void protocols::abinitio::Application::fix_chainbreaks

(

pose::Pose &

pose

)

register_options()

void protocols::abinitio::Application::register_options ( )

static

registering of options that are relevant for Application

References basic::options::OptionKeys::in::file::fold_tree, in::file::native(), NEW_OPT, and OPT.

Referenced by main().

run()

void protocols::abinitio::Application::run

(

)

References utility::io::oc::cout, create_a3b_hbs::f, evaluate_beta_mutants::file, basic::options::OptionKeys::in::file::fold_tree, basic::Tracer::Info, basic::options::OptionKeys::cmiles::jumping::jumping, native_pose_, option, make_symmdef_file_denovo::pos, beta_nonlocal::pose, test.T008_Serialization::pose2, create_a3b_hbs::score, basic::options::OptionKeys::frags::scoring::scoring, setup(), and protocols::abinitio::tr.

setup()

void protocols::abinitio::Application::setup

(

)

setup of Application data that is used for both, fold() and run() this is mainly stuff for scoring and evaluation ( process_decoys(), evaluator_ )

References in::file::native(), native_pose_, option, pyrosetta.distributed.io::pose_from_file, and basic::options::OptionKeys::inout::dbms::user.

Referenced by pyrosetta.distributed.tasks.taskbase.TaskBase::maybe_setup(), and run().

Member Data Documentation

native_pose_

pose::PoseOP protocols::abinitio::Application::native_pose_

private

Referenced by copy_native_structure(), run(), and setup().

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The documentation for this class was generated from the following file:

• src/apps/pilot/olli/r_check_chainbreak.cc