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protocols::antibody::grafting Namespace Reference

Classes

class  _AE_cdr_detection_failed_
 
class  _AE_cdr_undefined_
 
class  _AE_grafting_failed_
 
class  _AE_invalid_cdr_region_
 
class  _AE_json_cdr_detection_failed_
 
class  _AE_numbering_failed_
 
class  _AE_scs_failed_
 
class  _AE_unexpected_region_length_
 
class  Grafting_Base_Exception
 

Typedefs

typedef
utility::pointer::shared_ptr
< SCS_Result > 
SCS_ResultOP
 
typedef
utility::pointer::shared_ptr
< SCS_Result const > 
SCS_ResultCOP
 
typedef
utility::pointer::shared_ptr
< SCS_Antibody_Database_Result > 
SCS_Antibody_Database_ResultOP
 
typedef
utility::pointer::shared_ptr
< SCS_Antibody_Database_Result
const > 
SCS_Antibody_Database_ResultCOP
 
typedef
utility::pointer::shared_ptr
< SCS_BlastResult > 
SCS_BlastResultOP
 
typedef
utility::pointer::shared_ptr
< SCS_BlastResult const > 
SCS_BlastResultCOP
 
typedef
utility::pointer::shared_ptr
< SCS_Results > 
SCS_ResultsOP
 
typedef
utility::pointer::shared_ptr
< SCS_Results const > 
SCS_ResultsCOP
 
typedef
utility::pointer::shared_ptr
< SCS_ResultSet > 
SCS_ResultSetOP
 
typedef
utility::pointer::shared_ptr
< SCS_ResultSet const > 
SCS_ResultSetCOP
 
typedef
utility::pointer::shared_ptr
< SCS_Base > 
SCS_BaseOP
 
typedef
utility::pointer::shared_ptr
< SCS_Base const > 
SCS_BaseCOP
 
typedef
utility::pointer::shared_ptr
< SCS_LoopOverSCs > 
SCS_LoopOverSCsOP
 
typedef
utility::pointer::shared_ptr
< SCS_LoopOverSCs const > 
SCS_LoopOverSCsCOP
 
typedef
utility::pointer::shared_ptr
< SCS_BlastPlus > 
SCS_BlastPlusOP
 
typedef
utility::pointer::shared_ptr
< SCS_BlastPlus const > 
SCS_BlastPlusCOP
 
typedef
utility::pointer::shared_ptr
< SCS_Functor > 
SCS_FunctorOP
 
typedef
utility::pointer::shared_ptr
< SCS_Functor const > 
SCS_FunctorCOP
 
typedef
utility::pointer::shared_ptr
< SCS_SubstitutionMatrixResult > 
SCS_SubstitutionMatrixResultOP
 
typedef
utility::pointer::shared_ptr
< SCS_SubstitutionMatrixResult
const > 
SCS_SubstitutionMatrixResultCOP
 

Functions

bool antibody_grafting_usable ()
 Check if regex library is functional. More...
 
utility::vector0< std::map
< std::string, std::string > > 
parse_plain_text_with_columns (std::string file_name, std::string legend_prefix="# ", char legend_separator=' ', std::string data_prefix="", char data_separator=' ')
 helper function to parse plain text for BLAST result and filter data More...
 

Typedef Documentation

typedef utility::pointer::shared_ptr< SCS_Antibody_Database_Result const > protocols::antibody::grafting::SCS_Antibody_Database_ResultCOP
typedef utility::pointer::shared_ptr< SCS_Antibody_Database_Result > protocols::antibody::grafting::SCS_Antibody_Database_ResultOP
typedef utility::pointer::shared_ptr< SCS_Base const > protocols::antibody::grafting::SCS_BaseCOP
typedef utility::pointer::shared_ptr< SCS_Base > protocols::antibody::grafting::SCS_BaseOP
typedef utility::pointer::shared_ptr< SCS_BlastPlus const > protocols::antibody::grafting::SCS_BlastPlusCOP
typedef utility::pointer::shared_ptr< SCS_BlastPlus > protocols::antibody::grafting::SCS_BlastPlusOP
typedef utility::pointer::shared_ptr< SCS_BlastResult const > protocols::antibody::grafting::SCS_BlastResultCOP
typedef utility::pointer::shared_ptr< SCS_BlastResult > protocols::antibody::grafting::SCS_BlastResultOP
typedef utility::pointer::shared_ptr< SCS_Functor const > protocols::antibody::grafting::SCS_FunctorCOP
typedef utility::pointer::shared_ptr< SCS_Functor > protocols::antibody::grafting::SCS_FunctorOP
typedef utility::pointer::shared_ptr< SCS_LoopOverSCs const > protocols::antibody::grafting::SCS_LoopOverSCsCOP
typedef utility::pointer::shared_ptr< SCS_LoopOverSCs > protocols::antibody::grafting::SCS_LoopOverSCsOP
typedef utility::pointer::shared_ptr< SCS_Result const > protocols::antibody::grafting::SCS_ResultCOP
typedef utility::pointer::shared_ptr< SCS_Result > protocols::antibody::grafting::SCS_ResultOP
typedef utility::pointer::shared_ptr< SCS_Results const > protocols::antibody::grafting::SCS_ResultsCOP
typedef utility::pointer::shared_ptr< SCS_ResultSet const > protocols::antibody::grafting::SCS_ResultSetCOP
typedef utility::pointer::shared_ptr< SCS_ResultSet > protocols::antibody::grafting::SCS_ResultSetOP
typedef utility::pointer::shared_ptr< SCS_Results > protocols::antibody::grafting::SCS_ResultsOP
typedef utility::pointer::shared_ptr< SCS_SubstitutionMatrixResult const > protocols::antibody::grafting::SCS_SubstitutionMatrixResultCOP
typedef utility::pointer::shared_ptr< SCS_SubstitutionMatrixResult > protocols::antibody::grafting::SCS_SubstitutionMatrixResultOP

Function Documentation

bool protocols::antibody::grafting::antibody_grafting_usable ( )

Check if regex library is functional.

utility::vector0< std::map<std::string, std::string> > protocols::antibody::grafting::parse_plain_text_with_columns ( std::string  file_name,
std::string  legend_prefix = "# ",
char  legend_separator = ' ',
std::string  data_prefix = "",
char  data_separator = ' ' 
)

helper function to parse plain text for BLAST result and filter data