bio::chemical::AbstractMotif Class Reference

#include <AbstractMotif.h>

Inheritance diagram for bio::chemical::AbstractMotif:

Collaboration diagram for bio::chemical::AbstractMotif:

Public Member Functions
	AbstractMotif ()
virtual	~AbstractMotif ()
virtual void	ClearImplementation ()
virtual Container *	GetAllImplementation ()
virtual const Container *	GetAllImplementation () const
virtual unsigned long	GetCountImplementation () const
virtual std::string	GetStringFromImplementation (std::string separator=", ")
virtual void	ImportImplementation (const void *other)

Static Public Member Functions
static Properties	GetClassProperties ()

Protected Attributes
Container *	m_contents

Detailed Description

Definition at line 29 of file AbstractMotif.h.

Constructor & Destructor Documentation

AbstractMotif()

bio::chemical::AbstractMotif::AbstractMotif

(

)

Definition at line 35 of file AbstractMotif.cpp.

    :
    m_contents(NULL)
{
 
}

~AbstractMotif()

bio::chemical::AbstractMotif::~AbstractMotif ( )

virtual

Definition at line 42 of file AbstractMotif.cpp.

{
    if (m_contents)
    {
        delete m_contents;
        m_contents = NULL;
    }
}

References m_contents.

Member Function Documentation

ClearImplementation()

virtual void bio::chemical::AbstractMotif::ClearImplementation ( )

inlinevirtual

Clears the contents of *this.

Reimplemented in bio::chemical::LinearMotif< CONTENT_TYPE >, bio::chemical::LinearMotif< Organelle * >, bio::chemical::LinearMotif< genetic::Plasmid * >, bio::chemical::LinearMotif< Tissue * >, bio::chemical::LinearMotif< Organ * >, bio::chemical::LinearMotif< Cell * >, bio::chemical::LinearMotif< Substance * >, bio::chemical::LinearMotif< Symmetry * >, bio::chemical::LinearMotif< Plasmid * >, bio::chemical::LinearMotif< molecular::Protein * >, bio::chemical::LinearMotif< Gene * >, bio::chemical::LinearMotif< Surface * >, bio::chemical::LinearMotif< chemical::Reaction * >, bio::chemical::LinearMotif< Protein * >, bio::chemical::LinearMotif< Molecule * >, bio::chemical::LinearMotif< Organism * >, bio::chemical::LinearMotif< cellular::OrganSystem * >, bio::chemical::UnorderedMotif< CONTENT_TYPE >, bio::chemical::UnorderedMotif< Organelle * >, bio::chemical::UnorderedMotif< genetic::Plasmid * >, bio::chemical::UnorderedMotif< Tissue * >, bio::chemical::UnorderedMotif< Organ * >, bio::chemical::UnorderedMotif< Cell * >, bio::chemical::UnorderedMotif< Substance * >, bio::chemical::UnorderedMotif< Property >, bio::chemical::UnorderedMotif< State >, bio::chemical::UnorderedMotif< Symmetry * >, bio::chemical::UnorderedMotif< TranscriptionFactor >, bio::chemical::UnorderedMotif< Plasmid * >, bio::chemical::UnorderedMotif< molecular::Protein * >, bio::chemical::UnorderedMotif< Gene * >, bio::chemical::UnorderedMotif< Surface * >, bio::chemical::UnorderedMotif< chemical::Reaction * >, bio::chemical::UnorderedMotif< Protein * >, bio::chemical::UnorderedMotif< Molecule * >, bio::chemical::UnorderedMotif< Organism * >, and bio::chemical::UnorderedMotif< cellular::OrganSystem * >.

Definition at line 64 of file AbstractMotif.h.

    {
        //nop
    }

GetAllImplementation() [1/2]

Container * bio::chemical::AbstractMotif::GetAllImplementation ( )

virtual

Implementation for accessing all Contents.

Returns

all Contents in *this.

Definition at line 51 of file AbstractMotif.cpp.

{
    return this->m_contents;
}

References m_contents.

Referenced by bio::chemical::LinearMotif< CONTENT_TYPE >::LinearMotif(), bio::chemical::UnorderedStructureInterface::GetAll(), and bio::chemical::UnorderedMotif< CONTENT_TYPE >::ImportImplementation().

GetAllImplementation() [2/2]

const Container * bio::chemical::AbstractMotif::GetAllImplementation ( ) const

virtual

Const interface for accessing all Contents.

Returns

all Contents in *this.

Definition at line 56 of file AbstractMotif.cpp.

{
    return this->m_contents;
}

References m_contents.

GetClassProperties()

Properties bio::chemical::AbstractMotif::GetClassProperties ( )

static

See physical::Wave for more info on Resonance and how to use Properties.

Returns

{property::Structural()}

Definition at line 28 of file AbstractMotif.cpp.

{
    Properties ret;
    ret.push_back(property::Structural());
    return ret;
}

References bio::Properties, and bio::property::Structural().

Referenced by bio::chemical::LinearMotif< CONTENT_TYPE >::GetClassProperties(), bio::cellular::PeakCarrierWave::GetProperties(), bio::chemical::UnorderedStructureInterface::ImportAll(), and bio::chemical::LinearMotif< CONTENT_TYPE >::InsertImplementation().

GetCountImplementation()

virtual unsigned long bio::chemical::AbstractMotif::GetCountImplementation ( ) const

inlinevirtual

Implementation for counting Contents.

Returns

the number of Contents in *this.

Reimplemented in bio::chemical::UnorderedMotif< CONTENT_TYPE >, bio::chemical::UnorderedMotif< Organelle * >, bio::chemical::UnorderedMotif< genetic::Plasmid * >, bio::chemical::UnorderedMotif< Tissue * >, bio::chemical::UnorderedMotif< Organ * >, bio::chemical::UnorderedMotif< Cell * >, bio::chemical::UnorderedMotif< Substance * >, bio::chemical::UnorderedMotif< Property >, bio::chemical::UnorderedMotif< State >, bio::chemical::UnorderedMotif< Symmetry * >, bio::chemical::UnorderedMotif< TranscriptionFactor >, bio::chemical::UnorderedMotif< Plasmid * >, bio::chemical::UnorderedMotif< molecular::Protein * >, bio::chemical::UnorderedMotif< Gene * >, bio::chemical::UnorderedMotif< Surface * >, bio::chemical::UnorderedMotif< chemical::Reaction * >, bio::chemical::UnorderedMotif< Protein * >, bio::chemical::UnorderedMotif< Molecule * >, bio::chemical::UnorderedMotif< Organism * >, and bio::chemical::UnorderedMotif< cellular::OrganSystem * >.

Definition at line 73 of file AbstractMotif.h.

    {
        return 0;
    }

GetStringFromImplementation()

virtual std::string bio::chemical::AbstractMotif::GetStringFromImplementation ( std::string  separator = ", " )

inlinevirtual

Get the Contents of *this as a string.

Parameters

separator

e.g. ", ", the default, or just " ".

Returns

the Contents of *this as a string.

Reimplemented in bio::chemical::LinearMotif< CONTENT_TYPE >, bio::chemical::LinearMotif< Organelle * >, bio::chemical::LinearMotif< genetic::Plasmid * >, bio::chemical::LinearMotif< Tissue * >, bio::chemical::LinearMotif< Organ * >, bio::chemical::LinearMotif< Cell * >, bio::chemical::LinearMotif< Substance * >, bio::chemical::LinearMotif< Symmetry * >, bio::chemical::LinearMotif< Plasmid * >, bio::chemical::LinearMotif< molecular::Protein * >, bio::chemical::LinearMotif< Gene * >, bio::chemical::LinearMotif< Surface * >, bio::chemical::LinearMotif< chemical::Reaction * >, bio::chemical::LinearMotif< Protein * >, bio::chemical::LinearMotif< Molecule * >, bio::chemical::LinearMotif< Organism * >, bio::chemical::LinearMotif< cellular::OrganSystem * >, bio::chemical::UnorderedMotif< CONTENT_TYPE >, bio::chemical::UnorderedMotif< Organelle * >, bio::chemical::UnorderedMotif< genetic::Plasmid * >, bio::chemical::UnorderedMotif< Tissue * >, bio::chemical::UnorderedMotif< Organ * >, bio::chemical::UnorderedMotif< Cell * >, bio::chemical::UnorderedMotif< Substance * >, bio::chemical::UnorderedMotif< Property >, bio::chemical::UnorderedMotif< State >, bio::chemical::UnorderedMotif< Symmetry * >, bio::chemical::UnorderedMotif< TranscriptionFactor >, bio::chemical::UnorderedMotif< Plasmid * >, bio::chemical::UnorderedMotif< molecular::Protein * >, bio::chemical::UnorderedMotif< Gene * >, bio::chemical::UnorderedMotif< Surface * >, bio::chemical::UnorderedMotif< chemical::Reaction * >, bio::chemical::UnorderedMotif< Protein * >, bio::chemical::UnorderedMotif< Molecule * >, bio::chemical::UnorderedMotif< Organism * >, and bio::chemical::UnorderedMotif< cellular::OrganSystem * >.

Definition at line 93 of file AbstractMotif.h.

    {
        return "";
    }

ImportImplementation()

virtual void bio::chemical::AbstractMotif::ImportImplementation ( const void *  other )

inlinevirtual

Copy the contents of another container into this. void used to avoid ambiguous implicit casting.

Parameters

other

Definition at line 83 of file AbstractMotif.h.

    {
        //nop
    }

Member Data Documentation

m_contents

Container* bio::chemical::AbstractMotif::m_contents

mutableprotected

Definition at line 99 of file AbstractMotif.h.

Referenced by bio::chemical::LinearMotif< CONTENT_TYPE >::LinearMotif(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::UnorderedMotif(), ~AbstractMotif(), bio::chemical::LinearMotif< CONTENT_TYPE >::~LinearMotif(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::AddImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::AddImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::Attenuate(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(), bio::chemical::LinearMotif< CONTENT_TYPE >::ClearImplementation(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::ClearImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::Disattenuate(), bio::chemical::LinearMotif< CONTENT_TYPE >::ForEachImplementation(), GetAllImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::GetByIdImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::GetByNameImplementation(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::GetCountImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::GetStringFromImplementation(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::GetStringFromImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::HasImplementation(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::HasImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::ImportImplementation(), bio::chemical::UnorderedMotif< CONTENT_TYPE >::ImportImplementation(), bio::chemical::LinearMotif< CONTENT_TYPE >::InsertImplementation(), and bio::chemical::UnorderedMotif< CONTENT_TYPE >::RemoveImplementation().

---

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

• /home/eons/git/biology/lib_bio/inc/bio/chemical/structure/motif/AbstractMotif.h
• /home/eons/git/biology/lib_bio/src/chemical/structure/motif/AbstractMotif.cpp