MatchRemote Class Reference

#include <SSAHAClient.h>

Inheritance diagram for MatchRemote:

[legend]Collaboration diagram for MatchRemote:

[legend]List of all members.

Public Member Functions
	MatchRemote (vector< QueryInfo > &query)
virtual	~MatchRemote ()
virtual SequenceNumber	getSubjectNum (void) const
virtual const char *	getSubjectName (void) const
virtual SequenceOffset	getSubjectStart (void) const
virtual SequenceOffset	getSubjectEnd (void) const
virtual SequenceNumber	getQueryNum (void) const
virtual string	getQueryName (void) const
virtual SequenceOffset	getQueryStart (void) const
virtual SequenceOffset	getQueryEnd (void) const
virtual int	getQuerySize (void) const
virtual int	getNumBases (void) const
virtual bool	isQueryForward (void) const
virtual bool	isSubjectForward (void) const
virtual void	print (void) const
Public Attributes
MatchInfo	data_
map< SequenceNumber, std::string >	names_
Private Attributes
vector< QueryInfo > &	query_

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Detailed Description

Definition at line 49 of file SSAHAClient.h.

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Constructor & Destructor Documentation

MatchRemote::MatchRemote

(

vector< QueryInfo > &

query

)

Definition at line 47 of file SSAHAClient.cpp.

                                                   :
  query_(query) {}  

MatchRemote::~MatchRemote

(

)

[virtual]

Definition at line 50 of file SSAHAClient.cpp.

{}

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Member Function Documentation

virtual SequenceNumber MatchRemote::getSubjectNum

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 55 of file SSAHAClient.h.

References data_, and MatchInfo::subjectNum.

    { return data_.subjectNum; }

virtual const char* MatchRemote::getSubjectName

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 57 of file SSAHAClient.h.

References data_, names_, and MatchInfo::subjectNum.

    { return names_[ data_.subjectNum ].c_str(); }

virtual SequenceOffset MatchRemote::getSubjectStart

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 59 of file SSAHAClient.h.

References data_, and MatchInfo::subjectStart.

    { return data_.subjectStart; }

virtual SequenceOffset MatchRemote::getSubjectEnd

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 61 of file SSAHAClient.h.

References data_, and MatchInfo::subjectEnd.

    { return data_.subjectEnd; }

virtual SequenceNumber MatchRemote::getQueryNum

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 64 of file SSAHAClient.h.

References data_, and MatchInfo::queryNum.

    { return data_.queryNum; }

string MatchRemote::getQueryName

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 53 of file SSAHAClient.cpp.

References data_, query_, and MatchInfo::queryNum.

                                             {
  return query_[ data_.queryNum-1 ].second;
} 

virtual SequenceOffset MatchRemote::getQueryStart

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 67 of file SSAHAClient.h.

References data_, and MatchInfo::queryStart.

    { return data_.queryStart; }

virtual SequenceOffset MatchRemote::getQueryEnd

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 70 of file SSAHAClient.h.

References data_, and MatchInfo::queryEnd.

    { return data_.queryEnd; }

int MatchRemote::getQuerySize

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 57 of file SSAHAClient.cpp.

References data_, WordSequence::getNumBasesInLast(), hello, query_, MatchInfo::queryNum, and Handshake::wordLength.

                                          {
  WordSequence& thisSeq(query_[ data_.queryNum-1 ].first);
  return (thisSeq.size()==0) 
    ? 0 
    : (thisSeq.size()-1)*hello.wordLength + thisSeq.getNumBasesInLast();
}

Here is the call graph for this function:

virtual int MatchRemote::getNumBases

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 74 of file SSAHAClient.h.

References data_, and MatchInfo::numBases.

    { return data_.numBases; }

virtual bool MatchRemote::isQueryForward

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 76 of file SSAHAClient.h.

References data_, and MatchInfo::isQueryForward.

    { return data_.isQueryForward; }

virtual bool MatchRemote::isSubjectForward

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 78 of file SSAHAClient.h.

References data_, and MatchInfo::isSubjectForward.

    { return data_.isSubjectForward; }

virtual void MatchRemote::print

(

void

)

const [inline, virtual]

Implements Match.

Definition at line 81 of file SSAHAClient.h.

{}

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Member Data Documentation

MatchInfo MatchRemote::data_

Definition at line 82 of file SSAHAClient.h.

Referenced by getNumBases(), getQueryEnd(), getQueryName(), getQueryNum(), getQuerySize(), getQueryStart(), getSubjectEnd(), getSubjectName(), getSubjectNum(), getSubjectStart(), isQueryForward(), isSubjectForward(), and sendQuery().

map<SequenceNumber,std::string> MatchRemote::names_ [mutable]

Definition at line 83 of file SSAHAClient.h.

Referenced by getSubjectName(), and sendQuery().

vector<QueryInfo>& MatchRemote::query_ [private]

Definition at line 85 of file SSAHAClient.h.

Referenced by getQueryName(), and getQuerySize().

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

• EnsemblServer/SSAHAClient.h
• EnsemblServer/SSAHAClient.cpp

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