#include <protocols/evolution/AlignmentCleanerTools.hh>
#include <protocols/task_operations/ThreadSequenceOperation.hh>
#include <core/pose/Pose.fwd.hh>
#include <core/pack/task/PackerTask.fwd.hh>
#include <core/pack/task/TaskFactory.hh>
#include <protocols/minimization_packing/PackRotamersMover.hh>
#include <core/pose/symmetry/util.hh>
#include <core/scoring/ScoreFunction.hh>
#include <basic/Tracer.hh>

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.

	protocols::evolution

	protocols::evolution::AlignmentCleanerTools

Functions
static basic::Tracer	protocols::evolution::AlignmentCleanerTools::TR ("protocols.evolution.AlignmentCleanerTools")

void	protocols::evolution::AlignmentCleanerTools::thread_sequence_on_pose (core::pose::Pose &pose, std::string const &thread_seq, core::scoring::ScoreFunctionOP scorefxn)

std::tuple< std::string, std::string >	protocols::evolution::AlignmentCleanerTools::indel_motif (std::string const &aln_seq, core::Size const motif_radius, core::Size const aln_resi, std::string const &pose_ss_aln)

core::Real	protocols::evolution::AlignmentCleanerTools::indel_motif_seq_id (std::string const &motif1, std::string const &motif2)

std::string	protocols::evolution::AlignmentCleanerTools::short_ss_loop_filter (std::string ss, core::Size min_loop_length)

Namespaces

Functions