#include <RemodelData.hh>
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| RemodelData () |
| constructor More...
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void | getLoopsToBuildFromBlueprint (std::string text_blueprint) |
| Parses the blueprint text. More...
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void | getLoopsToBuildFromFile (std::string filename) |
| Reads in the blueprint file and passes the text data to the blueprint file parser. More...
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void | splitString (std::string str, std::string delim, std::vector< std::string > &results) |
| Splits a string on the passed in delimeter and places the tokens in the passed in vector. Isn't there a function in utility that can do this already? More...
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void | updateWithDsspAssignment (ObjexxFCL::FArray1D_char &dsspSS) |
| Updates the dssp_updated_ss vector with secondary structure information. Uses the information obtained from DSSP unless the secondary structure was specified in the blueprint file. More...
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void | collectInsertionPose () |
| If users are trying to do domain insertion with remodel (by specifying the insert_segment_from_pdb command-line option), then this function is called to read in the PDB file for that segment. More...
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void | translateDSSP_ABEGO (std::string &ss, std::string &abego) |
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protocols::forge::remodel::RemodelData::RemodelData |
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void protocols::forge::remodel::RemodelData::collectInsertionPose |
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void protocols::forge::remodel::RemodelData::getLoopsToBuildFromBlueprint |
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std::string |
text_blueprint | ) |
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Parses the blueprint text.
References protocols::cluster::calibur::aa, core::chemical::aa_from_oneletter_code(), core::scoring::abego, protocols::forge::remodel::LineObject::aminoAcidList, protocols::forge::remodel::LineObject::constraint_definition, core::pack::task::create_command_map(), protocols::forge::remodel::LineObject::design_type, core::sequence::end, protocols::forge::remodel::LineObject::has_constraints, protocols::forge::remodel::LineObject::has_ncaa, protocols::forge::remodel::LineObject::index, protocols::forge::remodel::LineObject::isDesignable, protocols::forge::remodel::LineObject::original_index, protocols::forge::remodel::LineObject::resname, protocols::forge::remodel::LineObject::sstype, and TR_REMODEL().
Referenced by protocols::forge::remodel::RemodelMover::apply().
void protocols::forge::remodel::RemodelData::getLoopsToBuildFromFile |
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std::string |
filename | ) |
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void protocols::forge::remodel::RemodelData::splitString |
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std::string |
str, |
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std::string |
delim, |
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std::vector< std::string > & |
results |
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Splits a string on the passed in delimeter and places the tokens in the passed in vector. Isn't there a function in utility that can do this already?
void protocols::forge::remodel::RemodelData::translateDSSP_ABEGO |
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std::string & |
ss, |
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std::string & |
abego |
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void protocols::forge::remodel::RemodelData::updateWithDsspAssignment |
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ObjexxFCL::FArray1D_char & |
dsspSS | ) |
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std::string protocols::forge::remodel::RemodelData::abego |
bool protocols::forge::remodel::RemodelData::auto_design |
int protocols::forge::remodel::RemodelData::design_mode |
bool protocols::forge::remodel::RemodelData::design_neighbor |
std::vector<core::Size> protocols::forge::remodel::RemodelData::disulfLandingRange |
std::vector<core::Size> protocols::forge::remodel::RemodelData::disulfMobileRange |
std::string protocols::forge::remodel::RemodelData::dssp_updated_ss |
bool protocols::forge::remodel::RemodelData::has_design_info_ |
int protocols::forge::remodel::RemodelData::insertionSize |
std::string protocols::forge::remodel::RemodelData::insertionSS |
std::string protocols::forge::remodel::RemodelData::LD_types |
std::string protocols::forge::remodel::RemodelData::parsed_string_for_resfile |
int protocols::forge::remodel::RemodelData::pdb_start |
int protocols::forge::remodel::RemodelData::pdb_stop |
std::string protocols::forge::remodel::RemodelData::sequence |
std::string protocols::forge::remodel::RemodelData::ss |
float protocols::forge::remodel::RemodelData::total_chain_break_score |
The documentation for this class was generated from the following files: