dump_capped_residue.cc File Reference

Useful utility: given an amino/nucleic acid name, dump a polymerically capped version as PDB. More...

#include <core/pose/Pose.hh>
#include <core/pose/util.hh>
#include <core/pose/annotated_sequence.hh>
#include <core/import_pose/import_pose.hh>
#include <core/pose/PDBInfo.hh>
#include <core/conformation/Conformation.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/Patch.hh>
#include <core/chemical/VariantType.hh>
#include <numeric/xyz.functions.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/operation/TaskOperation.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/Energies.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/scoring/constraints/ConstraintSet.fwd.hh>
#include <core/scoring/constraints/util.hh>
#include <core/scoring/constraints/AtomPairConstraint.hh>
#include <core/scoring/constraints/DihedralConstraint.hh>
#include <core/scoring/func/CircularHarmonicFunc.hh>
#include <core/scoring/func/TopOutFunc.hh>
#include <core/kinematics/FoldTree.hh>
#include <protocols/jd2/JobDistributor.hh>
#include <protocols/jd2/Job.hh>
#include <protocols/ncbb/util.hh>
#include <protocols/loops/loop_closure/kinematic_closure/KinematicMover.hh>
#include <protocols/moves/MoverContainer.hh>
#include <protocols/minimization_packing/MinMover.hh>
#include <protocols/rigid/RB_geometry.hh>
#include <numeric/conversions.hh>
#include <numeric/random/random.hh>
#include <basic/resource_manager/ResourceManager.hh>
#include <devel/init.hh>
#include <basic/options/util.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/run.OptionKeys.gen.hh>
#include <basic/Tracer.hh>
#include <utility/exit.hh>
#include <utility/pointer/owning_ptr.hh>
#include <utility/tools/make_vector1.hh>
#include <string>
#include <sstream>

Namespaces
	dumper

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

Variables
static basic::Tracer	TR ("DumpCapped")
StringOptionKey const	dumper::residue_name ("dumper:residue_name")
BooleanOptionKey const	dumper::nopatch ("dumper:nopatch")
BooleanOptionKey const	dumper::fiveprime ("dumper:fiveprime")

Detailed Description

Useful utility: given an amino/nucleic acid name, dump a polymerically capped version as PDB.

Author

Andy Watkins (amw57.nosp@m.9@st.nosp@m.anfor.nosp@m.d.ed.nosp@m.u)

Function Documentation

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

References utility::io::oc::cerr, test.T009_Exceptions::e, dumper::fiveprime, basic::database::full_name(), test.T200_Scoring::ii, devel::init(), min(), loops_kic::mm, utility::excn::Exception::msg(), name, dumper::nopatch, option, demo.D010_Pose_structure::pose, res, erraser_analysis::res2, dumper::residue_name, TR, DRRAFTER::type, and value.

Variable Documentation

basic::Tracer TR("DumpCapped")

static

Referenced by main().