gov::lbl::genome::common::GenomeInfo Class Reference

Collaboration diagram for gov::lbl::genome::common::GenomeInfo:

[legend]List of all members.

Public Member Functions
	GenomeInfo (String id, String adb, Vector curves, boolean deleted)
	GenomeInfo (String id, String adb, String name, Vector curves, GenesInfo[] genes)
	GenomeInfo (int genomeId, String id, String adb, String name, Vector curves, GenesInfo[] genes, String defPos, boolean isDefault, String dataUrl, Vector browsers, int type)
int	getGenomeId ()
String	getId ()
String	getAdb ()
String	getName ()
Vector	getCurves ()
CurveInfo	getCurve (int index)
CurveInfo	getCurve (String ID)
void	setCheckedCurves (Vector curves)
Vector	getCheckedCurves ()
String	getDefPos ()
String	getCurrentPos ()
void	setCurrentPos (String pos)
boolean	isDefault ()
GenesInfo[]	getGenesInfos ()
boolean	isDeleted ()
String	getDataUrl ()
Vector	getBrowsers ()
int	getType ()
void	setDeleted (boolean deleted)
void	addCurve (CurveInfo curve)
int	getNumberOfCurves ()
String	toString ()
ChromInfo	getContig (String name)
void	setContig (String name, ChromInfo contig)

---

Detailed Description

Title: GenomeInfo

Description: Contains information about genome

Copyright: Copyright (c) 2002 Ernst Orlando Lawrence Berkeley National Laboratory

Company: LBNL

Author:

Michael Teplitskiy

Version:

2.0

---

Constructor & Destructor Documentation

gov::lbl::genome::common::GenomeInfo::GenomeInfo (  String  id, String  adb, Vector  curves, boolean  deleted )  [inline]

GenomeInfo Parameters: id  String adb  String curves  Vector deleted  boolean

gov::lbl::genome::common::GenomeInfo::GenomeInfo (  String  id, String  adb, String  name, Vector  curves, GenesInfo[]  genes )  [inline]

GenomeInfo Parameters: id  String adb  String name  String curves  Vector genes  GenesInfo[]

gov::lbl::genome::common::GenomeInfo::GenomeInfo (  int  genomeId, String  id, String  adb, String  name, Vector  curves, GenesInfo[]  genes, String  defPos, boolean  isDefault, String  dataUrl, Vector  browsers, int  type )  [inline]

GenomeInfo Parameters: genomeId  int id  String adb  String name  String curves  Vector genes  GenesInfo[] defPos  String isDefault  boolean dataUrl  String browsers  Vector type  int

---

Member Function Documentation

void gov::lbl::genome::common::GenomeInfo::addCurve (  CurveInfo  curve  )  [inline]

add Curve Parameters: curve  CurveInfo

String gov::lbl::genome::common::GenomeInfo::getAdb (   )  [inline]

get Annotation db Returns: String

Vector gov::lbl::genome::common::GenomeInfo::getBrowsers (   )  [inline]

return all available Browsers Returns: Vector

Vector gov::lbl::genome::common::GenomeInfo::getCheckedCurves (   )  [inline]

return list of Checked Curves Returns: Vector

ChromInfo gov::lbl::genome::common::GenomeInfo::getContig (  String  name  )  [inline]

get Contig (Chromosome) Parameters: name  String Returns: ChromInfo

String gov::lbl::genome::common::GenomeInfo::getCurrentPos (   )  [inline]

get Current Position Returns: String

CurveInfo gov::lbl::genome::common::GenomeInfo::getCurve (  int  index  )  [inline]

get Curve Info Parameters: index  int Returns: CurveInfo

Vector gov::lbl::genome::common::GenomeInfo::getCurves (   )  [inline]

get Curves Returns: Vector

String gov::lbl::genome::common::GenomeInfo::getDataUrl (   )  [inline]

get Data Url string Returns: String

String gov::lbl::genome::common::GenomeInfo::getDefPos (   )  [inline]

ge tDefault Position Returns: String

GenesInfo [] gov::lbl::genome::common::GenomeInfo::getGenesInfos (   )  [inline]

return GenesInfos Returns: GenesInfo[] See also: gov.lbl.genome.common.GenesInfo

int gov::lbl::genome::common::GenomeInfo::getGenomeId (   )  [inline]

get Genome Id Returns: int

String gov::lbl::genome::common::GenomeInfo::getId (   )  [inline]

get Id Returns: String

String gov::lbl::genome::common::GenomeInfo::getName (   )  [inline]

get Name Returns: String

int gov::lbl::genome::common::GenomeInfo::getNumberOfCurves (   )  [inline]

get Number Of Curves Returns: int

int gov::lbl::genome::common::GenomeInfo::getType (   )  [inline]

get Type Returns: int

boolean gov::lbl::genome::common::GenomeInfo::isDefault (   )  [inline]

return true if Default Returns: boolean

boolean gov::lbl::genome::common::GenomeInfo::isDeleted (   )  [inline]

return true if deleted Returns: boolean

void gov::lbl::genome::common::GenomeInfo::setCheckedCurves (  Vector  curves  )  [inline]

set list of Checked Curves Parameters: curves  Vector

void gov::lbl::genome::common::GenomeInfo::setContig (  String  name, ChromInfo  contig )  [inline]

setContig (Chromosome) Parameters: contig  ChromInfo

void gov::lbl::genome::common::GenomeInfo::setCurrentPos (  String  pos  )  [inline]

set Current Position Parameters: pos  String

void gov::lbl::genome::common::GenomeInfo::setDeleted (  boolean  deleted  )  [inline]

set genome as Deleted Parameters: deleted  boolean

String gov::lbl::genome::common::GenomeInfo::toString (   )  [inline]

return XML formatted summary string Returns: String

---

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

• /home/teplitski/Projects/vgb2/src/gov/lbl/genome/common/GenomeInfo.java

---