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AddMembraneMover.cc File Reference

Initialize the RosettaMP framework by adding representations of the membrane environemnt to the conformation data held by the pose. More...

#include <protocols/membrane/AddMembraneMover.hh>
#include <protocols/membrane/AddMembraneMoverCreator.hh>
#include <protocols/moves/Mover.hh>
#include <protocols/membrane/MPLipidAccessibility.hh>
#include <protocols/membrane/AqueousPoreFinder.hh>
#include <protocols/membrane/util.hh>
#include <core/pose/PDBInfo.hh>
#include <core/pose/PDBPoseMap.hh>
#include <core/conformation/Conformation.hh>
#include <core/conformation/membrane/MembraneParams.hh>
#include <core/conformation/membrane/MembraneInfo.hh>
#include <core/conformation/membrane/ImplicitLipidInfo.hh>
#include <core/conformation/membrane/SpanningTopology.hh>
#include <core/conformation/membrane/Span.hh>
#include <protocols/membrane/SetMembranePositionMover.hh>
#include <protocols/moves/DsspMover.hh>
#include <core/pose/selection.hh>
#include <core/pose/ResidueIndexDescription.hh>
#include <protocols/jd2/Job.hh>
#include <protocols/jd2/JobDistributor.hh>
#include <core/conformation/Residue.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueProperty.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/pose/Pose.hh>
#include <core/types.hh>
#include <protocols/rosetta_scripts/util.hh>
#include <protocols/filters/Filter.hh>
#include <utility/vector1.hh>
#include <numeric/xyzVector.hh>
#include <utility/file/FileName.hh>
#include <utility/file/file_sys_util.hh>
#include <utility/sql_database/DatabaseSessionManager.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/mp.OptionKeys.gen.hh>
#include <basic/database/sql_utils.hh>
#include <utility/tag/Tag.hh>
#include <basic/datacache/DataMap.hh>
#include <basic/Tracer.hh>
#include <core/pose/util.hh>
#include <utility/string_util.hh>
#include <cstdlib>
#include <map>
#include <utility/tag/XMLSchemaGeneration.hh>
#include <protocols/moves/mover_schemas.hh>

Namespaces

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

Macros

#define INCLUDED_protocols_membrane_AddMembraneMover_cc
 

Functions

static basic::Tracer TR ("protocols.membrane.AddMembraneMover")
 

Detailed Description

Initialize the RosettaMP framework by adding representations of the membrane environemnt to the conformation data held by the pose.

Given a pose, configure RosettaMP by adding the following information:

  1. Create and append a membrane residue (MEM) to the pose
  2. Create and store a SpanningTopology object
  3. Setup the initial membrane coordinates (typically centered at the origin)
  4. (Optional) Initialize per-atom lipid accessibility data
  5. (Optional) Initialize dimensions of the aqueous pore
  6. Initialize the ImplicitLipidMembraneInfo Upon completion, the call pose.conformation().is_membrane() will return true
Note
If you add a new step, please document and ensure all data is properly initialized by constructors, parse_my_tag, init_from_cmd, serialization routines, and xsd routines. This class is a data mammoth
Author
Rebecca Faye Alford (rfalf.nosp@m.ord1.nosp@m.2@gma.nosp@m.il.c.nosp@m.om)
JKLeman (julia.nosp@m..koe.nosp@m.hler..nosp@m.lema.nosp@m.n@gma.nosp@m.il.c.nosp@m.om)

Macro Definition Documentation

#define INCLUDED_protocols_membrane_AddMembraneMover_cc

Function Documentation

static basic::Tracer TR ( "protocols.membrane.AddMembraneMover"  )
static