astex
Class PeriodicTable

java.lang.Object
  astex.PeriodicTable

public class PeriodicTable
extends java.lang.Object

Field Summary

static int	ACTINIUM
static int	ALUMINUM
static int	AMERICIUM
static int	ANTIMONY
static int	ARGON
static int	ARSENIC
static int	ASTATINE
static java.lang.String[]	attachmentLabels Symbols used for displaying attachment points.
static int	BARIUM
static int	BERKELIUM
static int	BERYLLIUM
static int	BISMUTH
static int	BORON
static int	BROMINE
static int	CADMIUM
static int	CALCIUM
static int	CALIFORNIUM
static int	CARBON
static int	CERIUM
static int	CESIUM
static int	CHLORINE
static int	CHROMIUM
static int	COBALT
static int	COPPER
static int	CURIUM
static int	DYSPROSIUM
static int	EINSTEINIUM
static AtomicElement[]	elements
static int	ERBIUM
static int	EUROPIUM
static int	FERMIUM
static int	FLUORINE
static int	FRANCIUM
static int	GADOLINIUM
static int	GALLIUM
static int	GERMANIUM
static int	GOLD
static int	HAFNIUM
static int	HELIUM
static int	HOLMIUM
static int	HYDROGEN
static int	INDIUM
static int	IODINE
static int	IRIDIUM
static int	IRON
static int	KRYPTON
static int	LANTHANUM
static int	LAWRENCIUM
static int	LEAD
static int	LITHIUM
static int	LUTETIUM
static int	MAGNESIUM
static int	MANGANESE
static int	MENDELEVIUM
static int	MERCURY
static int	MOLYBDENUM
static int	NEODYMIUM
static int	NEON
static int	NEPTUNIUM
static int	NICKEL
static int	NIOBIUM
static int	NITROGEN
static int	NOBELIUM
static int	OSMIUM
static int	OXYGEN
static int	PALLADIUM
static int	PHOSPHORUS
static int	PLATINUM
static int	PLUTONIUM
static int	POLONIUM
static int	POTASSIUM
static int	PRASEODYMIUM
static int	PROMETHIUM
static int	PROTACTINIUM
static java.lang.String[]	radicalSymbols Symbols used for displaying radical states of atoms.
static int	RADIUM
static int	RADON
static int	RHENIUM
static int	RHODIUM
static int	RUBIDIUM
static int	RUTHENIUM
static int	SAMARIUM
static int	SCANDIUM
static int	SELENIUM
static int	SILICON
static int	SILVER
static int	SODIUM
static int	STRONTIUM
static int	SULPHUR
static int	TANTALUM
static int	TECHNETIUM
static int	TELLURIUM
static int	TERBIUM
static int	THALLIUM
static int	THORIUM
static int	THULIUM
static int	TIN
static int	TITANIUM
static int	UNKNOWN
static int	UNP
static int	UNQ
static int	URANIUM
static java.lang.String[]	valenceSymbols Symbols used for displaying valence states of atoms.
static int	VANADIUM
static int	WOLFRAM
static int	XENON
static int	YTTERBIUM
static int	YTTRIUM
static int	ZINC
static int	ZIRCONIUM

Constructor Summary

PeriodicTable()

Method Summary

static java.lang.String	getAtomSymbolFromElement(int num) returns the symbol for the specified atom type
static int	getElement(char c0, char c1) Decode element string to atomic number.
static int	getElementFromSymbol(char e0, char e1) Get element from characters from pdb file.
static int	getElementFromSymbol(java.lang.String symbol) Find the atomic number (atom type) given a symbol.
static java.lang.String	getSymbol(int el)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

elements

public static final AtomicElement[] elements

UNKNOWN

public static final int UNKNOWN

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Constant Field Values

HYDROGEN

public static final int HYDROGEN

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HELIUM

public static final int HELIUM

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LITHIUM

public static final int LITHIUM

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BERYLLIUM

public static final int BERYLLIUM

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BORON

public static final int BORON

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CARBON

public static final int CARBON

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NITROGEN

public static final int NITROGEN

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OXYGEN

public static final int OXYGEN

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FLUORINE

public static final int FLUORINE

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NEON

public static final int NEON

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SODIUM

public static final int SODIUM

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MAGNESIUM

public static final int MAGNESIUM

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ALUMINUM

public static final int ALUMINUM

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SILICON

public static final int SILICON

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PHOSPHORUS

public static final int PHOSPHORUS

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SULPHUR

public static final int SULPHUR

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CHLORINE

public static final int CHLORINE

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ARGON

public static final int ARGON

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POTASSIUM

public static final int POTASSIUM

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CALCIUM

public static final int CALCIUM

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SCANDIUM

public static final int SCANDIUM

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TITANIUM

public static final int TITANIUM

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VANADIUM

public static final int VANADIUM

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CHROMIUM

public static final int CHROMIUM

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MANGANESE

public static final int MANGANESE

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IRON

public static final int IRON

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COBALT

public static final int COBALT

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NICKEL

public static final int NICKEL

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COPPER

public static final int COPPER

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ZINC

public static final int ZINC

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GALLIUM

public static final int GALLIUM

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GERMANIUM

public static final int GERMANIUM

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ARSENIC

public static final int ARSENIC

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SELENIUM

public static final int SELENIUM

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BROMINE

public static final int BROMINE

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KRYPTON

public static final int KRYPTON

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RUBIDIUM

public static final int RUBIDIUM

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STRONTIUM

public static final int STRONTIUM

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YTTRIUM

public static final int YTTRIUM

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ZIRCONIUM

public static final int ZIRCONIUM

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NIOBIUM

public static final int NIOBIUM

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MOLYBDENUM

public static final int MOLYBDENUM

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TECHNETIUM

public static final int TECHNETIUM

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RUTHENIUM

public static final int RUTHENIUM

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RHODIUM

public static final int RHODIUM

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PALLADIUM

public static final int PALLADIUM

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SILVER

public static final int SILVER

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CADMIUM

public static final int CADMIUM

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INDIUM

public static final int INDIUM

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TIN

public static final int TIN

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ANTIMONY

public static final int ANTIMONY

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TELLURIUM

public static final int TELLURIUM

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IODINE

public static final int IODINE

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XENON

public static final int XENON

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CESIUM

public static final int CESIUM

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BARIUM

public static final int BARIUM

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LANTHANUM

public static final int LANTHANUM

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CERIUM

public static final int CERIUM

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PRASEODYMIUM

public static final int PRASEODYMIUM

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NEODYMIUM

public static final int NEODYMIUM

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PROMETHIUM

public static final int PROMETHIUM

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SAMARIUM

public static final int SAMARIUM

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EUROPIUM

public static final int EUROPIUM

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GADOLINIUM

public static final int GADOLINIUM

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TERBIUM

public static final int TERBIUM

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DYSPROSIUM

public static final int DYSPROSIUM

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HOLMIUM

public static final int HOLMIUM

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ERBIUM

public static final int ERBIUM

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THULIUM

public static final int THULIUM

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YTTERBIUM

public static final int YTTERBIUM

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LUTETIUM

public static final int LUTETIUM

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HAFNIUM

public static final int HAFNIUM

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TANTALUM

public static final int TANTALUM

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WOLFRAM

public static final int WOLFRAM

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RHENIUM

public static final int RHENIUM

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OSMIUM

public static final int OSMIUM

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IRIDIUM

public static final int IRIDIUM

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PLATINUM

public static final int PLATINUM

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GOLD

public static final int GOLD

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MERCURY

public static final int MERCURY

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THALLIUM

public static final int THALLIUM

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LEAD

public static final int LEAD

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BISMUTH

public static final int BISMUTH

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POLONIUM

public static final int POLONIUM

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ASTATINE

public static final int ASTATINE

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RADON

public static final int RADON

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FRANCIUM

public static final int FRANCIUM

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RADIUM

public static final int RADIUM

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ACTINIUM

public static final int ACTINIUM

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THORIUM

public static final int THORIUM

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PROTACTINIUM

public static final int PROTACTINIUM

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URANIUM

public static final int URANIUM

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NEPTUNIUM

public static final int NEPTUNIUM

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PLUTONIUM

public static final int PLUTONIUM

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AMERICIUM

public static final int AMERICIUM

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CURIUM

public static final int CURIUM

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BERKELIUM

public static final int BERKELIUM

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CALIFORNIUM

public static final int CALIFORNIUM

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EINSTEINIUM

public static final int EINSTEINIUM

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FERMIUM

public static final int FERMIUM

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MENDELEVIUM

public static final int MENDELEVIUM

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NOBELIUM

public static final int NOBELIUM

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LAWRENCIUM

public static final int LAWRENCIUM

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UNQ

public static final int UNQ

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UNP

public static final int UNP

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valenceSymbols

public static final java.lang.String[] valenceSymbols

Symbols used for displaying valence states of atoms.

radicalSymbols

public static final java.lang.String[] radicalSymbols

Symbols used for displaying radical states of atoms. For radical state 2, we should probably use unicode Middle dot "·"

attachmentLabels

public static final java.lang.String[] attachmentLabels

Symbols used for displaying attachment points.

Constructor Detail

PeriodicTable

public PeriodicTable()

Method Detail

getElementFromSymbol

public static int getElementFromSymbol(java.lang.String symbol)

Find the atomic number (atom type) given a symbol.

getElementFromSymbol

public static int getElementFromSymbol(char e0,
                                       char e1)

Get element from characters from pdb file.

getAtomSymbolFromElement

public static java.lang.String getAtomSymbolFromElement(int num)

returns the symbol for the specified atom type

getElement

public static int getElement(char c0,
                             char c1)

Decode element string to atomic number.

getSymbol

public static java.lang.String getSymbol(int el)