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SheetDB.hh File Reference
#include <protocols/denovo_design/architects/StrandArchitect.hh>
#include <protocols/fldsgn/topology/StrandPairing.hh>
#include <core/pose/Pose.fwd.hh>

Classes

class  protocols::denovo_design::components::SheetDB
 class used to create/manipulate a database of sheets using a list of pdb files More...
 

Namespaces

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

Typedefs

typedef utility::vector1
< core::pose::PoseCOP
protocols::denovo_design::components::SheetList
 this is the actual map used to store the sheets More...
 
typedef std::map< std::string,
SheetList > 
protocols::denovo_design::components::MapByLengths
 
typedef std::map< std::string,
MapByLengths > 
protocols::denovo_design::components::MapByOrientations
 
typedef std::map< core::Size,
MapByOrientations > 
protocols::denovo_design::components::MapByStrands
 

Functions

core::Size protocols::denovo_design::components::num_strands (core::pose::Pose const &pose)
 counts number of strands based on number of jumps. Pose must be a disconnected sheet More...
 
std::pair< std::string,
std::string > 
protocols::denovo_design::components::find_orientations_and_lengths (core::pose::Pose const &pose)
 gets a pair of strings, which refer to orientations, and lengths/shifts. Pose secstruct MUST be set More...
 
std::string protocols::denovo_design::components::make_strand_info_str (architects::Lengths const &lengths, RegisterShifts const &shifts)
 creates a string key for lengths/shifts based on the given vectors for strand lengths and register shifts More...
 
core::pose::PoseOP protocols::denovo_design::components::reverse_chains (core::pose::Pose const &pose)
 
int protocols::denovo_design::components::add_to_pose (core::pose::PoseOP newpose, core::pose::Pose const &pose, core::Size s_start, core::Size s_stop)
 
utility::vector1
< core::pose::PoseOP
protocols::denovo_design::components::extract_sheets_from_strandlist (utility::vector1< core::pose::PoseOP > const &strands, core::Size const nstrands)
 
utility::vector1
< core::pose::PoseOP
protocols::denovo_design::components::extract_sheets_from_pose (core::pose::Pose const &pose, protocols::fldsgn::topology::StrandPairings const &spairs, protocols::fldsgn::topology::SS_Info2 const &ss_info, bool const idealize)
 
std::string protocols::denovo_design::components::reverse_orientations (std::string const &orient)
 
utility::vector1< boolprotocols::denovo_design::components::parse_orientations (std::string const &orientations)
 
std::pair< utility::vector1
< core::Size >
, utility::vector1< int > > 
protocols::denovo_design::components::parse_lengths (std::string const &lengths)
 
std::string protocols::denovo_design::components::reverse_lengths (std::string const &orientations, std::string const &lengths)
 
std::string const & protocols::denovo_design::components::choose_canonical (std::string const &l1, std::string const &l2)
 
std::pair< std::string,
std::string > 
protocols::denovo_design::components::canonicalize (std::string const &orientations, std::string const &lengths)