AlignmentClustering.cc File Reference

Divide input alns into clusters based on gdtmm comparison of partial models using ranked alignments. More...

#include <utility/exit.hh>
#include <utility/string_util.hh>
#include <utility/file/FileName.hh>
#include <utility/file/file_sys_util.hh>
#include <utility/io/ozstream.hh>
#include <utility/io/izstream.hh>
#include <core/types.hh>
#include <core/pose/Pose.hh>
#include <basic/Tracer.hh>
#include <core/chemical/util.hh>
#include <core/chemical/ResidueTypeSet.fwd.hh>
#include <core/sequence/util.hh>
#include <core/sequence/SequenceAlignment.hh>
#include <core/scoring/rms_util.hh>
#include <core/kinematics/FoldTree.hh>
#include <protocols/comparative_modeling/AlignmentClustering.hh>
#include <protocols/comparative_modeling/coord_util.hh>
#include <protocols/comparative_modeling/PartialThreadingMover.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/run.OptionKeys.gen.hh>
#include <fstream>
#include <map>
#include <set>
#include <sstream>
#include <algorithm>
#include <core/import_pose/import_pose.hh>
#include <core/pose/annotated_sequence.hh>
#include <utility/vector1.hh>

Namespaces
	ObjexxFCL
	Application level code for relax-type protocols.
	ObjexxFCL::format
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::comparative_modeling

Functions
static thread_local basic::Tracer	tr ("AlignmentClustering")

Detailed Description

Divide input alns into clusters based on gdtmm comparison of partial models using ranked alignments.

Author

TJ Brunettes

Function Documentation

static thread_local basic::Tracer tr ( "AlignmentClustering"  )

static

Referenced by protocols::comparative_modeling::AlignmentClustering::AlignmentClustering(), protocols::comparative_modeling::AlignmentClustering::generateRankedAlignments(), and protocols::comparative_modeling::AlignmentCluster::output().