full_length_model.cc File Reference

#include <core/types.hh>
#include <devel/init.hh>
#include <basic/Tracer.hh>
#include <core/chemical/util.hh>
#include <basic/options/option.hh>
#include <core/sequence/util.hh>
#include <core/sequence/Sequence.hh>
#include <core/sequence/SequenceAlignment.hh>
#include <core/sequence/SWAligner.hh>
#include <core/sequence/NWAligner.hh>
#include <core/sequence/ScoringScheme.fwd.hh>
#include <core/sequence/SimpleScoringScheme.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/kinematics/MoveMap.fwd.hh>
#include <core/import_pose/pose_stream/util.hh>
#include <core/import_pose/pose_stream/MetaPoseInputStream.hh>
#include <core/import_pose/PDBSilentStruct.hh>
#include <core/io/pdb/pdb_writer.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/pose/Pose.hh>
#include <core/pose/util.hh>
#include <core/pack/pack_rotamers.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/fragment/FragSet.hh>
#include <core/fragment/FragSet.fwd.hh>
#include <protocols/relax/MiniRelax.hh>
#include <protocols/loops/loops_main.hh>
#include <protocols/comparative_modeling/util.hh>
#include <protocols/comparative_modeling/ThreadingMover.hh>
#include <protocols/comparative_modeling/StealSideChainsMover.hh>
#include <protocols/comparative_modeling/RecoverSideChainsMover.hh>
#include <utility/vector1.hh>
#include <utility/io/ozstream.hh>
#include <utility/excn/Exceptions.hh>
#include <string>
#include <basic/options/keys/cm.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/relax.OptionKeys.gen.hh>
#include <core/pose/annotated_sequence.hh>

Functions
void	restore_hack (core::pose::Pose &pose)
int	main (int argc, char *argv[])

Detailed Description

Author

James Thompson

Function Documentation

int main	(	int	argc,
		char *	argv[]
	)

References basic::options::OptionKeys::chemical::chemical, utility::io::ozstream::close(), utility::io::oc::cout, basic::Tracer::Debug, basic::options::OptionKeys::matdes::dock::dump_pdb, basic::options::OptionKeys::in::file::fasta, pyrosetta::get_score_function, test.T200_Scoring::ii, devel::init(), app.surface_docking.surface_docking::input, basic::options::OptionKeys::cm::min_loop_size, basic::options::OptionKeys::relax::mini, app.delta_score_per_mutation::mm, utility::excn::EXCN_Base::msg(), basic::options::option, options, basic::options::OptionKeys::cp::output, loops::pack, basic::options::OptionKeys::abinitio::relax, restore_hack(), PyMOL_demo::scorefxn, basic::options::OptionKeys::frags::scoring::scoring, basic::options::OptionKeys::relax::sequence, basic::options::OptionKeys::mh::match::ss, app.surface_docking.surface_docking::start_pose, app.delta_score_per_mutation::task, and tr().

void restore_hack

(

core::pose::Pose &

pose

)

References basic::options::OptionKeys::mh::match::ss.

Referenced by main().