org.jmol.viewer
Class JmolConstants

java.lang.Object
  org.jmol.viewer.JmolConstants

public final class JmolConstants
extends java.lang.Object

Field Summary

static java.lang.String[]	alternateElementNames
static byte[]	alternateElementNumbers
static int[]	argbsAmino
static int[]	argbsChainAtom some pastel colors C0D0FF - pastel blue B0FFB0 - pastel green B0FFFF - pastel cyan FFC0C8 - pink FFC0FF - pastel magenta FFFF80 - pastel yellow FFDEAD - navajowhite FFD070 - pastel gold FF9898 - light coral B4E444 - light yellow-green C0C000 - light olive FF8060 - light tomato 00FF7F - springgreen cpk on; select atomno>100; label %i; color chain; select selected & hetero; cpk off
static int[]	argbsChainHetero
static int[]	argbsCpk Default table of CPK atom colors.
static int[]	argbsCpkRasmol
static int[]	argbsFormalCharge
static int	argbShapelyBackbone
static int	argbShapelyDefault
static int	argbShapelySpecial
static int[]	argbsHbondType
static int[]	argbsIsosurfaceNegative
static int[]	argbsIsosurfacePositive
static int[]	argbsRoygbScale
static int[]	argbsRwbScale
static int[]	argbsShapely
static int[]	argbsStructure In DRuMS, RasMol, and Chime, quoting from http://www.umass.edu/microbio/rasmol/rascolor.htm The RasMol structure color scheme colors the molecule by protein secondary structure.
static byte	ATOMID_ALPHA_CARBON
static int	ATOMID_ALPHA_ONLY_MASK
static byte	ATOMID_AMINO_NITROGEN
static int	ATOMID_BACKBONE_MAX
static byte	ATOMID_C2
static byte	ATOMID_C3_PRIME
static byte	ATOMID_C4
static byte	ATOMID_C5
static byte	ATOMID_C5_PRIME
static byte	ATOMID_C5M
static byte	ATOMID_C6
static byte	ATOMID_C8
static byte	ATOMID_CARBONYL_CARBON
static byte	ATOMID_CARBONYL_OXYGEN
static int	ATOMID_DISTINGUISHING_ATOM_MAX
static byte	ATOMID_H3T_TERMINUS
static byte	ATOMID_H5T_TERMINUS
static int	ATOMID_MAX
static byte	ATOMID_N1
static byte	ATOMID_N2
static byte	ATOMID_N3
static byte	ATOMID_N4
static byte	ATOMID_N6
static byte	ATOMID_N7
static byte	ATOMID_N9
static int	ATOMID_NUCLEIC_MASK
static byte	ATOMID_NUCLEIC_PHOSPHORUS
static byte	ATOMID_NUCLEIC_WING
static byte	ATOMID_O1
static byte	ATOMID_O2
static byte	ATOMID_O3_PRIME
static byte	ATOMID_O4
static byte	ATOMID_O5_PRIME
static byte	ATOMID_O5T_TERMINUS
static byte	ATOMID_O6
static int	ATOMID_PHOSPHORUS_ONLY_MASK
static int	ATOMID_PROTEIN_MASK
static byte	ATOMID_RNA_O2PRIME
static byte	ATOMID_S4
static byte	ATOMID_TERMINATING_OXT
static int	AXES_DEFAULT_FONTSIZE
static short	BOND_ALL_MASK
static short	BOND_AROMATIC
static short	BOND_AROMATIC_MASK
static short	BOND_COVALENT_DOUBLE
static short	BOND_COVALENT_MASK
static short	BOND_COVALENT_SINGLE Extended Bond Definition Types
static short	BOND_COVALENT_TRIPLE
static short	BOND_H_MINUS_3
static short	BOND_H_MINUS_4
static short	BOND_H_NUCLEOTIDE
static short	BOND_H_PLUS_2
static short	BOND_H_PLUS_3
static short	BOND_H_PLUS_4
static short	BOND_H_PLUS_5
static short	BOND_H_REGULAR
static short	BOND_HBOND_SHIFT
static short	BOND_HYDROGEN_MASK
static short	BOND_PARTIAL01
static short	BOND_PARTIAL12
static short	BOND_STEREO_FAR
static short	BOND_STEREO_MASK
static short	BOND_STEREO_NEAR
static short	BOND_SULFUR_MASK
static java.lang.String	copyright
static java.lang.String	cvsDate
static java.lang.String	date
static java.lang.String	DEFAULT_FONTFACE
static java.lang.String	DEFAULT_FONTSTYLE
static java.lang.String[]	elementNames
static int	elementNumberMax one larger than the last elementNumber, same as elementSymbols.length
static java.lang.String[]	elementSymbols The default elementSymbols.
static short	FORMAL_CHARGE_COLIX_BLUE
static short	FORMAL_CHARGE_COLIX_RED
static short	FORMAL_CHARGE_COLIX_WHITE
static int	FORMAL_CHARGE_INDEX_MAX
static int	FORMAL_CHARGE_INDEX_WHITE
static int	FORMAL_CHARGE_MAX
static int	FORMAL_CHARGE_MIN ionic radii are looked up using a pair of parallel arrays the ionicLookupTable contains both the elementNumber and the ionization value, represented as follows: (elementNumber << 4) + (ionizationValue + 4) if you don't understand this representation, don't worry about the binary shifting and stuff.
static int	FORMAL_CHARGE_RANGE_SIZE
static short	GROUPID_AMINO_MAX
static int	GROUPID_GUANINE
static int	GROUPID_GUANINE_1_LAST
static int	GROUPID_GUANINE_1_MIN
static int	GROUPID_GUANINE_2_LAST
static int	GROUPID_GUANINE_2_MIN
static int	GROUPID_PLUS_GUANINE
static int	GROUPID_PROLINE PDB file format spec says that the 'residue name' must be right-justified.
static int	GROUPID_PURINE_LAST
static int	GROUPID_PURINE_MIN
static int	GROUPID_PYRIMIDINE_LAST
static int	GROUPID_PYRIMIDINE_MIN
static short	GROUPID_SHAPELY_MAX
static short[]	ionicLookupTable
static short[]	ionicMars
static int	LABEL_DEFAULT_FONTSIZE
static int	LABEL_DEFAULT_X_OFFSET
static int	LABEL_DEFAULT_Y_OFFSET
static int	LABEL_MAXIMUM_FONTSIZE
static int	LABEL_MINIMUM_FONTSIZE
static short	madMultipleBondSmallMaximum
static short	MAR_DELETED
static int	MAXIMUM_AUTO_BOND_COUNT
static int	MEASURE_DEFAULT_FONTSIZE
static int	MOUSE_DELETE
static int	MOUSE_MEASURE
static int	MOUSE_PICK
static int	MOUSE_POPUP_MENU
static int	MOUSE_ROTATE
static int	MOUSE_ROTATE_Z
static int	MOUSE_SLAB_PLANE
static int	MOUSE_XLATE
static int	MOUSE_ZOOM
static byte	MULTIBOND_ALWAYS
static byte	MULTIBOND_NEVER
static byte	MULTIBOND_SMALL
static byte	MULTIBOND_WIREFRAME
static boolean	officialRelease
static short	PARTIAL_CHARGE_COLIX_BLUE
static short	PARTIAL_CHARGE_COLIX_RED
static short	PARTIAL_CHARGE_COLIX_WHITE
static int	PARTIAL_CHARGE_RANGE_SIZE
static int	PICKING_ANGLE
static int	PICKING_BOND
static int	PICKING_CENTER
static int	PICKING_COORD
static int	PICKING_DISTANCE
static int	PICKING_IDENT
static int	PICKING_LABEL
static int	PICKING_MONITOR
static int	PICKING_OFF picking modes
static int	PICKING_SELECT_ATOM
static int	PICKING_SELECT_CHAIN
static int	PICKING_SELECT_GROUP
static int	PICKING_TORSION
static java.lang.String[]	pickingModeNames
static java.lang.String[]	predefinedGroup3Names
static java.lang.String[]	predefinedSets
static byte	PROTEIN_STRUCTURE_DNA
static byte	PROTEIN_STRUCTURE_HELIX
static byte	PROTEIN_STRUCTURE_NONE Default table of PdbStructure colors
static byte	PROTEIN_STRUCTURE_RNA
static byte	PROTEIN_STRUCTURE_SHEET
static byte	PROTEIN_STRUCTURE_TURN
static int	SHAPE_AXES
static int	SHAPE_BACKBONE
static int	SHAPE_BALLS
static int	SHAPE_BBCAGE
static int	SHAPE_CARTOON
static int	SHAPE_DOTS
static int	SHAPE_ECHO
static int	SHAPE_FRANK
static int	SHAPE_HOVER
static int	SHAPE_HSTICKS
static int	SHAPE_ISOSURFACE
static int	SHAPE_LABELS
static int	SHAPE_MAX
static int	SHAPE_MEASURES
static int	SHAPE_MESHRIBBON
static int	SHAPE_MIN_SELECTION_INDEPENDENT
static int	SHAPE_PMESH
static int	SHAPE_POLYHEDRA
static int	SHAPE_PRUEBA
static int	SHAPE_RIBBONS
static int	SHAPE_ROCKETS
static int	SHAPE_SASURFACE
static int	SHAPE_SSSTICKS
static int	SHAPE_STARS
static int	SHAPE_STICKS
static int	SHAPE_STRANDS
static int	SHAPE_TRACE
static int	SHAPE_UCCAGE
static int	SHAPE_VECTORS
static java.lang.String[]	shapeClassBases
static java.lang.String[]	specialAtomNames
static int	STEREO_DOUBLE
static int	STEREO_NONE
static int	STEREO_REDBLUE
static int	STEREO_REDCYAN
static int	STEREO_REDGREEN
static short[]	vanderwaalsMars Default table of van der Waals Radii.
static java.lang.String	version

Constructor Summary

JmolConstants()

Method Summary

static byte	elementNumberFromSymbol(java.lang.String elementSymbol)
static short	getBondingMar(int elementNumber, int charge)

Methods inherited from class java.lang.Object

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

Field Detail

copyright

public static final java.lang.String copyright

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version

public static final java.lang.String version

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cvsDate

public static final java.lang.String cvsDate

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date

public static final java.lang.String date

officialRelease

public static final boolean officialRelease

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MAR_DELETED

public static final short MAR_DELETED

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MOUSE_ROTATE

public static final int MOUSE_ROTATE

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MOUSE_ZOOM

public static final int MOUSE_ZOOM

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MOUSE_XLATE

public static final int MOUSE_XLATE

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MOUSE_PICK

public static final int MOUSE_PICK

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MOUSE_DELETE

public static final int MOUSE_DELETE

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MOUSE_MEASURE

public static final int MOUSE_MEASURE

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MOUSE_ROTATE_Z

public static final int MOUSE_ROTATE_Z

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MOUSE_SLAB_PLANE

public static final int MOUSE_SLAB_PLANE

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MOUSE_POPUP_MENU

public static final int MOUSE_POPUP_MENU

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MULTIBOND_NEVER

public static final byte MULTIBOND_NEVER

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MULTIBOND_WIREFRAME

public static final byte MULTIBOND_WIREFRAME

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MULTIBOND_SMALL

public static final byte MULTIBOND_SMALL

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MULTIBOND_ALWAYS

public static final byte MULTIBOND_ALWAYS

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madMultipleBondSmallMaximum

public static final short madMultipleBondSmallMaximum

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PICKING_OFF

public static final int PICKING_OFF

picking modes

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PICKING_IDENT

public static final int PICKING_IDENT

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PICKING_DISTANCE

public static final int PICKING_DISTANCE

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PICKING_MONITOR

public static final int PICKING_MONITOR

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PICKING_ANGLE

public static final int PICKING_ANGLE

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PICKING_TORSION

public static final int PICKING_TORSION

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PICKING_LABEL

public static final int PICKING_LABEL

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PICKING_CENTER

public static final int PICKING_CENTER

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PICKING_COORD

public static final int PICKING_COORD

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PICKING_BOND

public static final int PICKING_BOND

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PICKING_SELECT_ATOM

public static final int PICKING_SELECT_ATOM

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PICKING_SELECT_GROUP

public static final int PICKING_SELECT_GROUP

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PICKING_SELECT_CHAIN

public static final int PICKING_SELECT_CHAIN

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pickingModeNames

public static final java.lang.String[] pickingModeNames

BOND_COVALENT_SINGLE

public static final short BOND_COVALENT_SINGLE

Extended Bond Definition Types

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BOND_COVALENT_DOUBLE

public static final short BOND_COVALENT_DOUBLE

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BOND_COVALENT_TRIPLE

public static final short BOND_COVALENT_TRIPLE

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BOND_COVALENT_MASK

public static final short BOND_COVALENT_MASK

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BOND_AROMATIC_MASK

public static final short BOND_AROMATIC_MASK

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BOND_AROMATIC

public static final short BOND_AROMATIC

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BOND_STEREO_MASK

public static final short BOND_STEREO_MASK

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BOND_STEREO_NEAR

public static final short BOND_STEREO_NEAR

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BOND_STEREO_FAR

public static final short BOND_STEREO_FAR

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BOND_SULFUR_MASK

public static final short BOND_SULFUR_MASK

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BOND_HBOND_SHIFT

public static final short BOND_HBOND_SHIFT

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BOND_HYDROGEN_MASK

public static final short BOND_HYDROGEN_MASK

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BOND_H_REGULAR

public static final short BOND_H_REGULAR

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BOND_H_PLUS_2

public static final short BOND_H_PLUS_2

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BOND_H_PLUS_3

public static final short BOND_H_PLUS_3

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BOND_H_PLUS_4

public static final short BOND_H_PLUS_4

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BOND_H_PLUS_5

public static final short BOND_H_PLUS_5

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BOND_H_MINUS_3

public static final short BOND_H_MINUS_3

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BOND_H_MINUS_4

public static final short BOND_H_MINUS_4

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BOND_H_NUCLEOTIDE

public static final short BOND_H_NUCLEOTIDE

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BOND_PARTIAL01

public static final short BOND_PARTIAL01

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BOND_PARTIAL12

public static final short BOND_PARTIAL12

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BOND_ALL_MASK

public static final short BOND_ALL_MASK

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argbsHbondType

public static final int[] argbsHbondType

elementSymbols

public static final java.lang.String[] elementSymbols

The default elementSymbols. Presumably the only entry which may cause confusion is element 0, whose symbol we have defined as "Xx".

elementNumberMax

public static final int elementNumberMax

one larger than the last elementNumber, same as elementSymbols.length

elementNames

public static final java.lang.String[] elementNames

alternateElementNumbers

public static final byte[] alternateElementNumbers

alternateElementNames

public static final java.lang.String[] alternateElementNames

vanderwaalsMars

public static final short[] vanderwaalsMars

Default table of van der Waals Radii. values are stored as MAR -- Milli Angstrom Radius Used for spacefill rendering of atoms. Values taken from OpenBabel.

See Also:

openbabel.sourceforge.net

FORMAL_CHARGE_MIN

public static final int FORMAL_CHARGE_MIN

ionic radii are looked up using a pair of parallel arrays the ionicLookupTable contains both the elementNumber and the ionization value, represented as follows: (elementNumber << 4) + (ionizationValue + 4) if you don't understand this representation, don't worry about the binary shifting and stuff. It is just a sorted list of keys the values are stored in the ionicMars table these two arrays are parallel This data is from Handbook of Chemistry and Physics. 48th Ed, 1967-8, p. F143 (scanned for Jmol by Phillip Barak, Jan 2004)

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FORMAL_CHARGE_MAX

public static final int FORMAL_CHARGE_MAX

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ionicLookupTable

public static final short[] ionicLookupTable

ionicMars

public static final short[] ionicMars

MAXIMUM_AUTO_BOND_COUNT

public static final int MAXIMUM_AUTO_BOND_COUNT

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argbsCpk

public static final int[] argbsCpk

Default table of CPK atom colors. ghemical colors with a few proposed modifications

argbsCpkRasmol

public static final int[] argbsCpkRasmol

PROTEIN_STRUCTURE_NONE

public static final byte PROTEIN_STRUCTURE_NONE

Default table of PdbStructure colors

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PROTEIN_STRUCTURE_TURN

public static final byte PROTEIN_STRUCTURE_TURN

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PROTEIN_STRUCTURE_SHEET

public static final byte PROTEIN_STRUCTURE_SHEET

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PROTEIN_STRUCTURE_HELIX

public static final byte PROTEIN_STRUCTURE_HELIX

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PROTEIN_STRUCTURE_DNA

public static final byte PROTEIN_STRUCTURE_DNA

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PROTEIN_STRUCTURE_RNA

public static final byte PROTEIN_STRUCTURE_RNA

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argbsStructure

public static final int[] argbsStructure

In DRuMS, RasMol, and Chime, quoting from http://www.umass.edu/microbio/rasmol/rascolor.htm The RasMol structure color scheme colors the molecule by protein secondary structure. Structure Decimal RGB Hex RGB Alpha helices red-magenta [255,0,128] FF 00 80 * Beta strands yellow [255,200,0] FF C8 00 * Turns pale blue [96,128,255] 60 80 FF Other white [255,255,255] FF FF FF Values given in the 1994 RasMol 2.5 Quick Reference Card ([240,0,128] and [255,255,0]) are not correct for RasMol 2.6-beta-2a. This correction was made above on Dec 5, 1998.

argbsAmino

public static final int[] argbsAmino

argbShapelyBackbone

public static final int argbShapelyBackbone

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argbShapelySpecial

public static final int argbShapelySpecial

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argbShapelyDefault

public static final int argbShapelyDefault

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argbsShapely

public static final int[] argbsShapely

argbsChainAtom

public static final int[] argbsChainAtom

some pastel colors C0D0FF - pastel blue B0FFB0 - pastel green B0FFFF - pastel cyan FFC0C8 - pink FFC0FF - pastel magenta FFFF80 - pastel yellow FFDEAD - navajowhite FFD070 - pastel gold FF9898 - light coral B4E444 - light yellow-green C0C000 - light olive FF8060 - light tomato 00FF7F - springgreen cpk on; select atomno>100; label %i; color chain; select selected & hetero; cpk off

argbsChainHetero

public static final int[] argbsChainHetero

FORMAL_CHARGE_COLIX_RED

public static final short FORMAL_CHARGE_COLIX_RED

FORMAL_CHARGE_COLIX_WHITE

public static final short FORMAL_CHARGE_COLIX_WHITE

FORMAL_CHARGE_COLIX_BLUE

public static final short FORMAL_CHARGE_COLIX_BLUE

FORMAL_CHARGE_RANGE_SIZE

public static final int FORMAL_CHARGE_RANGE_SIZE

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argbsFormalCharge

public static final int[] argbsFormalCharge

FORMAL_CHARGE_INDEX_WHITE

public static final int FORMAL_CHARGE_INDEX_WHITE

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FORMAL_CHARGE_INDEX_MAX

public static final int FORMAL_CHARGE_INDEX_MAX

PARTIAL_CHARGE_COLIX_RED

public static final short PARTIAL_CHARGE_COLIX_RED

PARTIAL_CHARGE_COLIX_WHITE

public static final short PARTIAL_CHARGE_COLIX_WHITE

PARTIAL_CHARGE_COLIX_BLUE

public static final short PARTIAL_CHARGE_COLIX_BLUE

PARTIAL_CHARGE_RANGE_SIZE

public static final int PARTIAL_CHARGE_RANGE_SIZE

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argbsRwbScale

public static final int[] argbsRwbScale

argbsRoygbScale

public static final int[] argbsRoygbScale

argbsIsosurfacePositive

public static final int[] argbsIsosurfacePositive

argbsIsosurfaceNegative

public static final int[] argbsIsosurfaceNegative

specialAtomNames

public static final java.lang.String[] specialAtomNames

ATOMID_MAX

public static final int ATOMID_MAX

ATOMID_AMINO_NITROGEN

public static final byte ATOMID_AMINO_NITROGEN

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ATOMID_ALPHA_CARBON

public static final byte ATOMID_ALPHA_CARBON

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ATOMID_CARBONYL_CARBON

public static final byte ATOMID_CARBONYL_CARBON

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ATOMID_O5_PRIME

public static final byte ATOMID_O5_PRIME

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ATOMID_C5_PRIME

public static final byte ATOMID_C5_PRIME

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ATOMID_C3_PRIME

public static final byte ATOMID_C3_PRIME

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ATOMID_O3_PRIME

public static final byte ATOMID_O3_PRIME

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ATOMID_NUCLEIC_PHOSPHORUS

public static final byte ATOMID_NUCLEIC_PHOSPHORUS

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ATOMID_TERMINATING_OXT

public static final byte ATOMID_TERMINATING_OXT

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ATOMID_CARBONYL_OXYGEN

public static final byte ATOMID_CARBONYL_OXYGEN

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ATOMID_O1

public static final byte ATOMID_O1

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ATOMID_H5T_TERMINUS

public static final byte ATOMID_H5T_TERMINUS

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ATOMID_O5T_TERMINUS

public static final byte ATOMID_O5T_TERMINUS

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ATOMID_RNA_O2PRIME

public static final byte ATOMID_RNA_O2PRIME

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ATOMID_H3T_TERMINUS

public static final byte ATOMID_H3T_TERMINUS

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ATOMID_N1

public static final byte ATOMID_N1

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ATOMID_C2

public static final byte ATOMID_C2

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ATOMID_N3

public static final byte ATOMID_N3

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ATOMID_C4

public static final byte ATOMID_C4

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ATOMID_C5

public static final byte ATOMID_C5

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ATOMID_C6

public static final byte ATOMID_C6

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ATOMID_O2

public static final byte ATOMID_O2

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ATOMID_N7

public static final byte ATOMID_N7

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ATOMID_C8

public static final byte ATOMID_C8

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ATOMID_N9

public static final byte ATOMID_N9

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ATOMID_N4

public static final byte ATOMID_N4

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ATOMID_N2

public static final byte ATOMID_N2

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ATOMID_N6

public static final byte ATOMID_N6

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ATOMID_C5M

public static final byte ATOMID_C5M

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ATOMID_O6

public static final byte ATOMID_O6

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ATOMID_O4

public static final byte ATOMID_O4

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ATOMID_S4

public static final byte ATOMID_S4

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ATOMID_NUCLEIC_WING

public static final byte ATOMID_NUCLEIC_WING

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ATOMID_PROTEIN_MASK

public static final int ATOMID_PROTEIN_MASK

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ATOMID_ALPHA_ONLY_MASK

public static final int ATOMID_ALPHA_ONLY_MASK

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ATOMID_NUCLEIC_MASK

public static final int ATOMID_NUCLEIC_MASK

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ATOMID_PHOSPHORUS_ONLY_MASK

public static final int ATOMID_PHOSPHORUS_ONLY_MASK

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ATOMID_DISTINGUISHING_ATOM_MAX

public static final int ATOMID_DISTINGUISHING_ATOM_MAX

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ATOMID_BACKBONE_MAX

public static final int ATOMID_BACKBONE_MAX

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GROUPID_PROLINE

public static final int GROUPID_PROLINE

PDB file format spec says that the 'residue name' must be right-justified. However, Eric Martz says that some files are not. Therefore, we will be 'flexible' in reading the group name ... we will trim() when read in the field. So a 'group3' can now be less than 3 characters long.

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GROUPID_PURINE_MIN

public static final int GROUPID_PURINE_MIN

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GROUPID_PURINE_LAST

public static final int GROUPID_PURINE_LAST

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GROUPID_PYRIMIDINE_MIN

public static final int GROUPID_PYRIMIDINE_MIN

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GROUPID_PYRIMIDINE_LAST

public static final int GROUPID_PYRIMIDINE_LAST

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GROUPID_GUANINE

public static final int GROUPID_GUANINE

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GROUPID_PLUS_GUANINE

public static final int GROUPID_PLUS_GUANINE

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Constant Field Values

GROUPID_GUANINE_1_MIN

public static final int GROUPID_GUANINE_1_MIN

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Constant Field Values

GROUPID_GUANINE_1_LAST

public static final int GROUPID_GUANINE_1_LAST

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Constant Field Values

GROUPID_GUANINE_2_MIN

public static final int GROUPID_GUANINE_2_MIN

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Constant Field Values

GROUPID_GUANINE_2_LAST

public static final int GROUPID_GUANINE_2_LAST

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Constant Field Values

GROUPID_AMINO_MAX

public static final short GROUPID_AMINO_MAX

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Constant Field Values

GROUPID_SHAPELY_MAX

public static final short GROUPID_SHAPELY_MAX

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Constant Field Values

predefinedGroup3Names

public static final java.lang.String[] predefinedGroup3Names

predefinedSets

public static java.lang.String[] predefinedSets

DEFAULT_FONTFACE

public static final java.lang.String DEFAULT_FONTFACE

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Constant Field Values

DEFAULT_FONTSTYLE

public static final java.lang.String DEFAULT_FONTSTYLE

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Constant Field Values

LABEL_MINIMUM_FONTSIZE

public static final int LABEL_MINIMUM_FONTSIZE

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Constant Field Values

LABEL_MAXIMUM_FONTSIZE

public static final int LABEL_MAXIMUM_FONTSIZE

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Constant Field Values

LABEL_DEFAULT_FONTSIZE

public static final int LABEL_DEFAULT_FONTSIZE

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Constant Field Values

LABEL_DEFAULT_X_OFFSET

public static final int LABEL_DEFAULT_X_OFFSET

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Constant Field Values

LABEL_DEFAULT_Y_OFFSET

public static final int LABEL_DEFAULT_Y_OFFSET

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Constant Field Values

MEASURE_DEFAULT_FONTSIZE

public static final int MEASURE_DEFAULT_FONTSIZE

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Constant Field Values

AXES_DEFAULT_FONTSIZE

public static final int AXES_DEFAULT_FONTSIZE

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Constant Field Values

SHAPE_BALLS

public static final int SHAPE_BALLS

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Constant Field Values

SHAPE_STICKS

public static final int SHAPE_STICKS

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SHAPE_HSTICKS

public static final int SHAPE_HSTICKS

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Constant Field Values

SHAPE_SSSTICKS

public static final int SHAPE_SSSTICKS

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Constant Field Values

SHAPE_LABELS

public static final int SHAPE_LABELS

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Constant Field Values

SHAPE_VECTORS

public static final int SHAPE_VECTORS

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Constant Field Values

SHAPE_MEASURES

public static final int SHAPE_MEASURES

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Constant Field Values

SHAPE_DOTS

public static final int SHAPE_DOTS

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Constant Field Values

SHAPE_BACKBONE

public static final int SHAPE_BACKBONE

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Constant Field Values

SHAPE_TRACE

public static final int SHAPE_TRACE

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SHAPE_CARTOON

public static final int SHAPE_CARTOON

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SHAPE_STRANDS

public static final int SHAPE_STRANDS

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Constant Field Values

SHAPE_MESHRIBBON

public static final int SHAPE_MESHRIBBON

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Constant Field Values

SHAPE_RIBBONS

public static final int SHAPE_RIBBONS

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Constant Field Values

SHAPE_ROCKETS

public static final int SHAPE_ROCKETS

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Constant Field Values

SHAPE_STARS

public static final int SHAPE_STARS

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Constant Field Values

SHAPE_MIN_SELECTION_INDEPENDENT

public static final int SHAPE_MIN_SELECTION_INDEPENDENT

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Constant Field Values

SHAPE_AXES

public static final int SHAPE_AXES

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Constant Field Values

SHAPE_BBCAGE

public static final int SHAPE_BBCAGE

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Constant Field Values

SHAPE_UCCAGE

public static final int SHAPE_UCCAGE

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Constant Field Values

SHAPE_FRANK

public static final int SHAPE_FRANK

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Constant Field Values

SHAPE_ECHO

public static final int SHAPE_ECHO

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Constant Field Values

SHAPE_HOVER

public static final int SHAPE_HOVER

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Constant Field Values

SHAPE_PMESH

public static final int SHAPE_PMESH

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Constant Field Values

SHAPE_POLYHEDRA

public static final int SHAPE_POLYHEDRA

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Constant Field Values

SHAPE_SASURFACE

public static final int SHAPE_SASURFACE

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Constant Field Values

SHAPE_ISOSURFACE

public static final int SHAPE_ISOSURFACE

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Constant Field Values

SHAPE_PRUEBA

public static final int SHAPE_PRUEBA

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Constant Field Values

SHAPE_MAX

public static final int SHAPE_MAX

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Constant Field Values

shapeClassBases

public static final java.lang.String[] shapeClassBases

STEREO_NONE

public static final int STEREO_NONE

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Constant Field Values

STEREO_DOUBLE

public static final int STEREO_DOUBLE

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Constant Field Values

STEREO_REDCYAN

public static final int STEREO_REDCYAN

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Constant Field Values

STEREO_REDBLUE

public static final int STEREO_REDBLUE

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Constant Field Values

STEREO_REDGREEN

public static final int STEREO_REDGREEN

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Constant Field Values

Constructor Detail

JmolConstants

public JmolConstants()

Method Detail

elementNumberFromSymbol

public static byte elementNumberFromSymbol(java.lang.String elementSymbol)

Parameters:

elementSymbol - First char must be upper case, second char accepts upper or lower case

Returns:

elementNumber

getBondingMar

public static short getBondingMar(int elementNumber,
                                  int charge)