head Class Reference

#include <head.h>

List of all members.

Public Member Functions
	head ()
	head (const head &hd)
	~head ()
void	getHead (istream &ins, char ln[])
void	loadSeqInfo (seqinfo &si, Date &gd)
bool	isseg () const
bool	firstSeg () const
void	segmentOut (ostream &SOUF, char ss[], const seqinfo &mseq) const
char *	phylogeny () const
char *	getSource () const
char *	getOrganism () const
void	dump (ostream &SOUF, seqinfo &si) const
Private Member Functions
void	outAcc (ostream &so) const
Private Attributes
char	locus [LINE+1]
char	ver [35]
char	seg [12]
char *	source
char *	def
char *	acess
char *	keywd
char *	org
char *	phyl
Friends
ostream &	operator<< (ostream &ous, const head &h)

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Constructor & Destructor Documentation

head::head

(

)

References locus, seg, and ver.

head::head

(

const head &

hd

)

copy constructor

References acess, def, keywd, locus, org, phyl, seg, source, and ver.

head::~head

(

)

References acess, def, keywd, org, phyl, and source.

---

Member Function Documentation

void head::getHead	(	istream &	ins,
		char	ln[]
	)

References acess, def, dlc(), getField(), keywd, LINE, locus, org, phyl, rmdquote(), rpldquote(), seg, source, and ver.

Referenced by main().

void head::loadSeqInfo	(	seqinfo &	si,
		Date &	gd
	)

position of the LOCUS line GB Release 128 The detailed format for the LOCUS line format is as follows:

Positions Contents --------- -------- 01-05 'LOCUS' 06-12 spaces 13-28 Locus name |0,15 29-29 space 30-40 Length of sequence, right-justified |17,27> 41-41 space 42-43 bp |29,30 44-44 space 45-47 spaces, ss- (single-stranded), ds- (double-stranded), or ms- (mixed-stranded) |32,34 48-53 NA, DNA, RNA, tRNA (transfer RNA), rRNA (ribosomal RNA), mRNA (messenger RNA), uRNA (small nuclear RNA), snRNA, snoRNA. Left justified. |<35,40 54-55 space 56-63 'linear' followed by two spaces, or 'circular' |43,50 64-64 space 65-67 The division code (see Section 3.3) |52,54 68-68 space 69-79 Date, in the form dd-MMM-yyyy (e.g., 15-MAR-1991) |56,66

References seqinfo::acc, acess, seqinfo::div, firstwd(), Date::gbstr(), seqinfo::len, seqinfo::linear, seqinfo::locus, locus, org, seqinfo::org, seg, seqinfo::seg, substr(), and seqinfo::type.

Referenced by main().

bool head::isseg

(

)

const [inline]

References seg.

Referenced by dump(), and operator<<().

bool head::firstSeg

(

)

const

References seg.

Referenced by dump().

void head::segmentOut	(	ostream &	SOUF,
		char	ss[],
		const seqinfo &	mseq
	)			const

References seqinfo::locus, and seg.

Referenced by dump().

char * head::phylogeny

(

)

const

References phyl.

Referenced by main().

char* head::getSource

(

)

const [inline]

References source.

char* head::getOrganism

(

)

const [inline]

References org.

Referenced by main().

void head::dump	(	ostream &	SOUF,
		seqinfo &	si
	)			const

write out the headed into ace format

References def, firstSeg(), isseg(), keywd, seqinfo::len, seqinfo::locus, seqinfo::name(), seqinfo::nameseg(), seqinfo::org, outAcc(), segmentOut(), source, seqinfo::type, and ver.

Referenced by main().

void head::outAcc

(

ostream &

so

)

const [private]

References acess.

Referenced by dump().

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Friends And Related Function Documentation

ostream& operator<<	(	ostream &	ous,
		const head &	h
	)			[friend]

---

Member Data Documentation

char head::locus[LINE+1] [private]

Referenced by getHead(), head(), loadSeqInfo(), and operator<<().

char head::ver[35] [private]

Referenced by dump(), getHead(), head(), and operator<<().

char head::seg[12] [private]

Referenced by firstSeg(), getHead(), head(), isseg(), loadSeqInfo(), operator<<(), and segmentOut().

char* head::source [private]

Referenced by dump(), getHead(), getSource(), head(), and ~head().

char* head::def [private]

Referenced by dump(), getHead(), head(), and ~head().

char * head::acess [private]

Referenced by getHead(), head(), loadSeqInfo(), outAcc(), and ~head().

char * head::keywd [private]

Referenced by dump(), getHead(), head(), and ~head().

char * head::org [private]

Referenced by getHead(), getOrganism(), head(), loadSeqInfo(), and ~head().

char * head::phyl [private]

Referenced by getHead(), head(), phylogeny(), and ~head().

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

• seqconv/gbtoace/head.h
• seqconv/gbtoace/head.cpp