Rosetta
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#include <devel/init.hh>
#include <core/pose/Pose.hh>
#include <core/pose/init_id_map.hh>
#include <core/pose/PDBInfo.hh>
#include <core/pose/Pose.fwd.hh>
#include <core/pose/annotated_sequence.hh>
#include <core/pose/variant_util.hh>
#include <core/pose/subpose_manipulation_util.hh>
#include <core/import_pose/import_pose.hh>
#include <core/conformation/Residue.hh>
#include <core/conformation/util.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/chemical/AtomType.hh>
#include <core/util/SwitchResidueTypeSet.hh>
#include <core/sequence/util.hh>
#include <core/sequence/Sequence.hh>
#include <core/conformation/ResidueFactory.hh>
#include <protocols/electron_density/DensitySymmInfo.hh>
#include <protocols/electron_density/DockFragmentsIntoDensityMover.hh>
#include <protocols/minimization_packing/PackRotamersMover.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/optimization/CartesianMinimizer.hh>
#include <core/optimization/MinimizerOptions.hh>
#include <core/scoring/electron_density/ElectronDensity.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/fragment/util.hh>
#include <core/fragment/FragmentIO.hh>
#include <core/fragment/FragSet.hh>
#include <core/fragment/Frame.hh>
#include <core/fragment/FrameIterator.hh>
#include <core/fragment/FragData.hh>
#include <core/fragment/ConstantLengthFragSet.hh>
#include <core/fragment/BBTorsionSRFD.hh>
#include <core/io/silent/BinarySilentStruct.hh>
#include <core/io/silent/SilentFileData.hh>
#include <core/io/silent/SilentFileOptions.hh>
#include <basic/options/option.hh>
#include <basic/options/option_macros.hh>
#include <basic/options/keys/OptionKeys.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/edensity.OptionKeys.gen.hh>
#include <ObjexxFCL/format.hh>
#include <numeric/xyzVector.hh>
#include <numeric/xyzVector.io.hh>
#include <numeric/random/random.hh>
#include <utility/string_util.hh>
#include <tuple>
#include <basic/Tracer.hh>
#include <string>
#include <algorithm>
#include <utility/file/FileName.hh>
#include <fstream>
#include <core/chemical/AtomTypeSet.hh>
Classes | |
struct | CAtrace |
struct | FragID |
class | DockFragmentsMover |
class | ScoreFragmentSetMover |
class | FragmentAssemblyMover |
class | ConsensusFragmentMover |
class | SolutionRescoreMover |
Functions | |
void | ReadCAsFromPDB (std::string pdbfile, utility::vector1< numeric::xyzVector< core::Real > > &cas) |
bool | operator< (const FragID &x, const FragID &y) |
int | main (int argc, char *argv[]) |
Variables | |
static basic::Tracer | TR ("denovo_density") |
int main | ( | int | argc, |
char * | argv[] | ||
) |
main
References argv, test.T009_Exceptions::e, basic::init(), in::missing_density_to_jump(), SmotifHasher::mode, NEW_OPT, out::nooutput(), basic::options::OptionKeys::loodo::num_frags, option, make_symmdef_file_denovo::pos, DockFragmentsMover::run(), ScoreFragmentSetMover::run(), FragmentAssemblyMover::run(), ConsensusFragmentMover::run(), SolutionRescoreMover::run(), extract_by_sidechain_sasa_score::scorefile, TR, and basic::options::OptionKeys::sc::verbose.
References x, and predPRE::y.
void ReadCAsFromPDB | ( | std::string | pdbfile, |
utility::vector1< numeric::xyzVector< core::Real > > & | cas | ||
) |
References cal_vdw_radius_pool::buf, getline(), and clean_pdb_keep_ligand::pdbfile.
Referenced by DockFragmentsMover::run().
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static |