protocols::abinitio::ApplicationContext Class Reference

#include <ApplicationContext.hh>

Public Member Functions
	ApplicationContext ()

Static Public Member Functions
static void	generateExtendedPose (core::pose::Pose &extended_pose, std::string &sequence)
static void	copyStructure (core::pose::Pose &source, core::pose::Pose &destination)
static void	register_options ()

Public Attributes
int	nStruct_
std::string	sequence_
core::io::silent::SilentFileDataOP	silentScoreFile_
core::pose::PoseOP	nativePose_
core::pose::PoseOP	startingPose_
core::fragment::FragSetOP	fragsetLarge_
core::fragment::FragSetOP	fragsetSmall_

Constructor & Destructor Documentation

ApplicationContext()

protocols::abinitio::ApplicationContext::ApplicationContext

(

)

References copyStructure(), kmeans_adaptive_kernel_density_bb_dependent_rotlib::fn, in::file::frag3(), in::file::frag9(), in::file::fragA(), in::file::fragB(), basic::Tracer::Info, max(), in::file::native(), out::nstruct(), option, pyrosetta.distributed.io::pose_from_file, in::file::s(), basic::options::OptionKeys::out::sf, basic::options::OptionKeys::abinitio::start_native, protocols::abinitio::tr, and basic::options::OptionKeys::inout::dbms::user.

Member Function Documentation

copyStructure()

void protocols::abinitio::ApplicationContext::copyStructure ( core::pose::Pose &  source, core::pose::Pose &  destination  )

static

References create_a3b_hbs::i, and min().

Referenced by ApplicationContext().

generateExtendedPose()

void protocols::abinitio::ApplicationContext::generateExtendedPose ( core::pose::Pose &  extended_pose, std::string &  sequence  )

static

References basic::options::OptionKeys::in::file::extended_pose, make_symmdef_file_denovo::pos, basic::options::OptionKeys::in::file::residue_type_set, and basic::options::OptionKeys::relax::sequence.

register_options()

void protocols::abinitio::ApplicationContext::register_options ( )

static

References in::file::fasta(), in::file::frag3(), in::file::frag9(), in::file::native(), NEW_OPT, out::nstruct(), OPT, in::file::s(), basic::options::OptionKeys::out::sf, out::file::silent(), and basic::options::OptionKeys::abinitio::start_native.

Member Data Documentation

fragsetLarge_

core::fragment::FragSetOP protocols::abinitio::ApplicationContext::fragsetLarge_

Referenced by main().

fragsetSmall_

core::fragment::FragSetOP protocols::abinitio::ApplicationContext::fragsetSmall_

Referenced by main().

nativePose_

core::pose::PoseOP protocols::abinitio::ApplicationContext::nativePose_

nStruct_

int protocols::abinitio::ApplicationContext::nStruct_

Referenced by protocols::abinitio::CustomAbinitio::run().

sequence_

std::string protocols::abinitio::ApplicationContext::sequence_

silentScoreFile_

core::io::silent::SilentFileDataOP protocols::abinitio::ApplicationContext::silentScoreFile_

Referenced by protocols::abinitio::CustomAbinitio::run().

startingPose_

core::pose::PoseOP protocols::abinitio::ApplicationContext::startingPose_

Referenced by main(), protocols::abinitio::CustomAbinitio::run(), and protocols::abinitio::CustomAbinitio::setDefaults().

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The documentation for this class was generated from the following files:

• src/apps/pilot/dgront/ApplicationContext.hh
• src/apps/pilot/dgront/ApplicationContext.cc