protocols::peptide_deriver::PeptideDeriverOutputterContainer Class Reference

a container class which holds a list of PeptideDeriverOutputter instances and delegates calls to those More...

#include <PeptideDeriverOutputterContainer.hh>

Inheritance diagram for protocols::peptide_deriver::PeptideDeriverOutputterContainer:

Public Member Functions
	PeptideDeriverOutputterContainer ()
	PeptideDeriverOutputterContainer (PeptideDeriverOutputterContainer const &src)
	~PeptideDeriverOutputterContainer () override
PeptideDeriverOutputterContainerOP	clone () const
void	push_back (PeptideDeriverOutputterOP const item)
	add an outputter to the list. More...
void	clear ()
	clear all outputters in the list. More...
void	begin_structure (core::pose::Pose const &pose, std::string const &) override
	called by PeptideDeriverFilter when processing of a strucuture (possibly multi-chain) starts More...
void	chain_pair_pose_prepared (core::pose::Pose const &pose) override
	called by PeptideDeriverFilter when a chain-pair pose is prepared (minimized and disulfide-bridge resolved) More...
void	begin_receptor_partner_pair (char const receptor_chain_letter, char const partner_chain_letter, core::Real const total_isc, std::string const &options_string) override
	called by PeptideDeriverFilter when calculation commences on a receptor-partner pair More...
void	peptide_length (core::Size const pep_length) override
	called by PeptideDeriverFilter when calculation commences for the specified peptide length this is called for every peptide length specified to PeptideDeriverFilter, per each call to PeptideDeriverOutputter::begin_receptor_partner_pair() More...
void	peptide_entry (PeptideDeriverEntryType entry_type, core::Real const total_isc, DerivedPeptideEntryCOP entry) override
	called by PeptideDeriverFilter for each 'peptide' entry that should be output. besides the peptides for each sliding window, this is being called for the 'best' peptides ( More...
void	end_receptor_partner_pair () override
	called by PeptideDeriverFilter when calculation concludes for a receptor-partner pair (for all the different peptide lengths) More...
void	end_structure () override
	called by PeptideDeriverFilter when processing of a strucuture (all chain-pairs considered) ends More...
Public Member Functions inherited from protocols::peptide_deriver::PeptideDeriverOutputter
	PeptideDeriverOutputter ()
	default constructor More...
virtual	~PeptideDeriverOutputter ()
	destructor More...
core::Real	avoid_negative_zero (core::Real const value, core::Real const threshold)

Private Attributes
utility::vector1 < PeptideDeriverOutputterOP >	list_

Detailed Description

a container class which holds a list of PeptideDeriverOutputter instances and delegates calls to those

Constructor & Destructor Documentation

protocols::peptide_deriver::PeptideDeriverOutputterContainer::PeptideDeriverOutputterContainer

(

)

protocols::peptide_deriver::PeptideDeriverOutputterContainer::PeptideDeriverOutputterContainer

(

PeptideDeriverOutputterContainer const &

src

)

References list_.

protocols::peptide_deriver::PeptideDeriverOutputterContainer::~PeptideDeriverOutputterContainer ( )

overridedefault

Member Function Documentation

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::begin_receptor_partner_pair ( char const  receptor_chain_letter, char const  partner_chain_letter, core::Real const  total_isc, std::string const &  options_string  )

overridevirtual

called by PeptideDeriverFilter when calculation commences on a receptor-partner pair

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::begin_structure ( core::pose::Pose const &  , std::string const &    )

overridevirtual

called by PeptideDeriverFilter when processing of a strucuture (possibly multi-chain) starts

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

Referenced by protocols::peptide_deriver::PeptideDeriverFilter::report().

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::chain_pair_pose_prepared ( core::pose::Pose const &  pose )

overridevirtual

called by PeptideDeriverFilter when a chain-pair pose is prepared (minimized and disulfide-bridge resolved)

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::clear

(

)

clear all outputters in the list.

References list_.

PeptideDeriverOutputterContainerOP protocols::peptide_deriver::PeptideDeriverOutputterContainer::clone

(

)

const

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::end_receptor_partner_pair ( )

overridevirtual

called by PeptideDeriverFilter when calculation concludes for a receptor-partner pair (for all the different peptide lengths)

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::end_structure ( )

overridevirtual

called by PeptideDeriverFilter when processing of a strucuture (all chain-pairs considered) ends

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

Referenced by protocols::peptide_deriver::PeptideDeriverFilter::report().

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::peptide_entry ( PeptideDeriverEntryType  entry_type, core::Real const  total_isc, DerivedPeptideEntryCOP  entry  )

overridevirtual

called by PeptideDeriverFilter for each 'peptide' entry that should be output. besides the peptides for each sliding window, this is being called for the 'best' peptides (

See also

PeptideDeriverEntryType)

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::peptide_length ( core::Size const  pep_length )

overridevirtual

called by PeptideDeriverFilter when calculation commences for the specified peptide length this is called for every peptide length specified to PeptideDeriverFilter, per each call to PeptideDeriverOutputter::begin_receptor_partner_pair()

Implements protocols::peptide_deriver::PeptideDeriverOutputter.

References list_.

void protocols::peptide_deriver::PeptideDeriverOutputterContainer::push_back

(

PeptideDeriverOutputterOP const

item

)

add an outputter to the list.

References list_.

Referenced by protocols::peptide_deriver::PeptideDeriverFilter::report().

Member Data Documentation

utility::vector1<PeptideDeriverOutputterOP> protocols::peptide_deriver::PeptideDeriverOutputterContainer::list_

private

Referenced by begin_receptor_partner_pair(), begin_structure(), chain_pair_pose_prepared(), clear(), end_receptor_partner_pair(), end_structure(), peptide_entry(), peptide_length(), PeptideDeriverOutputterContainer(), and push_back().

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

• src/protocols/peptide_deriver/PeptideDeriverOutputterContainer.hh
• src/protocols/peptide_deriver/PeptideDeriverOutputterContainer.cc