super_aln.cc File Reference

#include <core/types.hh>
#include <devel/init.hh>
#include <core/conformation/Residue.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/pose/Pose.hh>
#include <core/scoring/rms_util.hh>
#include <core/import_pose/pose_stream/PoseInputStream.hh>
#include <core/import_pose/pose_stream/PoseInputStream.fwd.hh>
#include <core/import_pose/pose_stream/PDBPoseInputStream.hh>
#include <core/id/AtomID.hh>
#include <core/id/AtomID_Map.hh>
#include <utility/vector1.hh>
#include <utility/excn/Exceptions.hh>
#include <numeric/xyzVector.hh>
#include <core/sequence/util.hh>
#include <core/id/SequenceMapping.hh>
#include <core/sequence/SequenceAlignment.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/cm.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <core/pose/util.hh>
#include <core/pose/util.tmpl.hh>

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

Detailed Description

Author

James Thompson

Function Documentation

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

References in::file::alignment(), cm::aln_format(), basic::options::OptionKeys::chemical::chemical, utility::io::oc::cout, basic::options::OptionKeys::cutoutdomain::end, test.T200_Scoring::ii, devel::init(), basic::options::OptionKeys::mp::mutate_relax::iter, utility::excn::EXCN_Base::msg(), out::file::o(), option, options, test.T010_LoadPDB::pose2, basic::options::OptionKeys::willmatch::residues, in::file::s(), in::target_residues(), and basic::options::OptionKeys::inout::dbms::user.