LayerDesignOperation.cc File Reference

Design residues with selected amino acids depending on the enviroment: layer. The layer of each residue is assigned as core, boundary, or surface, which are defined by accessible surface of mainchain + CB. If resfile is read before calling this operation, this operation is not applied for the residues defined by PIKAA. More...

#include <protocols/flxbb/LayerDesignOperation.hh>
#include <protocols/flxbb/LayerDesignOperationCreator.hh>
#include <core/pose/Pose.hh>
#include <core/conformation/Residue.hh>
#include <core/pack/task/PackerTask_.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/scoring/dssp/Dssp.hh>
#include <core/pack/task/operation/TaskOperationFactory.hh>
#include <basic/Tracer.hh>
#include <protocols/toolbox/SelectResiduesByLayer.hh>
#include <core/pose/symmetry/util.hh>
#include <basic/datacache/DataMap.hh>
#include <protocols/jd2/parser/BluePrint.hh>
#include <protocols/flxbb/utility.hh>
#include <utility/string_util.hh>
#include <utility/tag/Tag.hh>
#include <utility/vector1.hh>
#include <algorithm>
#include <utility/vector0.hh>
#include <utility/io/ozstream.hh>
#include <utility/file/file_sys_util.hh>
#include <ObjexxFCL/format.hh>
#include <basic/options/keys/OptionKeys.hh>
#include <boost/assign/list_inserter.hpp>
#include <boost/assign/list_of.hpp>
#include <boost/foreach.hpp>
#include <boost/lexical_cast.hpp>

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

Functions
static thread_local basic::Tracer	TR ("protocols.flxbb.LayerDesignOperation")
template<class T >
LayerDesignOperation::LayerDefinitions	protocols::flxbb::makeMap (T const &map_initializer)

Detailed Description

Design residues with selected amino acids depending on the enviroment: layer. The layer of each residue is assigned as core, boundary, or surface, which are defined by accessible surface of mainchain + CB. If resfile is read before calling this operation, this operation is not applied for the residues defined by PIKAA.

Author

Nobuyasu Koga ( nobuy.nosp@m.asu@.nosp@m.uw.ed.nosp@m.u ) Javier Castellanos (javie.nosp@m.rcv@.nosp@m.uw.ed.nosp@m.u )

Function Documentation

static thread_local basic::Tracer TR ( "protocols.flxbb.LayerDesignOperation"  )

static