JmolConstants

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

public class JmolConstants
extends java.lang.Object

Field Summary

Fields
Modifier and Type	Field	Description
`static java.lang.String`	`ADD_HYDROGEN_TITLE`
`static java.lang.String`	`allowedQuaternionFrames`
`static int[]`	`altArgbsCpk`
`static float`	`ANGSTROMS_PER_BOHR`
`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[]`	`argbsFormalCharge`
`static int`	`argbShapelyBackbone`
`static int`	`argbShapelyDefault`
`static int`	`argbShapelySpecial`
`static int`	`argbsIsosurfaceNegative`
`static int`	`argbsIsosurfacePositive`
`static int[]`	`argbsRoygbScale`
`static int[]`	`argbsRwbScale`
`static int[]`	`argbsShapely`
`static int`	`ATOM_IN_FRAME`
`static int`	`ATOM_SLABBED`
`static byte`	`ATOMID_ALPHA_CARBON`
`static int`	`ATOMID_ALPHA_ONLY_MASK`
`static byte`	`ATOMID_AMINO_NITROGEN`
`static byte`	`ATOMID_C1_PRIME`
`static byte`	`ATOMID_C2`
`static byte`	`ATOMID_C3_PRIME`
`static byte`	`ATOMID_C4`
`static byte`	`ATOMID_C4_PRIME`
`static byte`	`ATOMID_C5`
`static byte`	`ATOMID_C5M`
`static byte`	`ATOMID_C6`
`static byte`	`ATOMID_C7`
`static byte`	`ATOMID_C8`
`static byte`	`ATOMID_CARBONYL_CARBON`
`static byte`	`ATOMID_CARBONYL_OD1`
`static byte`	`ATOMID_CARBONYL_OD2`
`static byte`	`ATOMID_CARBONYL_OE1`
`static byte`	`ATOMID_CARBONYL_OE2`
`static byte`	`ATOMID_CARBONYL_OXYGEN`
`static int`	`ATOMID_DISTINGUISHING_ATOM_MAX`
`static byte`	`ATOMID_H3T_TERMINUS`
`static byte`	`ATOMID_H5T_TERMINUS`
`static byte`	`ATOMID_HO3_PRIME`
`static byte`	`ATOMID_HO5_PRIME`
`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_O1`
`static byte`	`ATOMID_O1P`
`static byte`	`ATOMID_O2`
`static byte`	`ATOMID_O2_PRIME`
`static byte`	`ATOMID_O2P`
`static byte`	`ATOMID_O3_PRIME`
`static byte`	`ATOMID_O4`
`static byte`	`ATOMID_O5_PRIME`
`static byte`	`ATOMID_O5T_TERMINUS`
`static byte`	`ATOMID_O6`
`static byte`	`ATOMID_OP1`
`static byte`	`ATOMID_OP2`
`static int`	`ATOMID_PHOSPHORUS_ONLY_MASK`
`static int`	`ATOMID_PROTEIN_MASK`
`static byte`	`ATOMID_S4`
`static byte`	`ATOMID_SG`
`static byte`	`ATOMID_TERMINATING_OXT`
`static int`	`AXES_DEFAULT_FONTSIZE`
`static Vector3f`	`axisNX`
`static Vector3f`	`axisNY`
`static Vector3f`	`axisNZ`
`static Vector3f`	`axisX`
`static Vector3f`	`axisY`
`static Vector3f`	`axisZ`
`static java.lang.String`	`binaryExtensions`
`static Vector3f`	`center`
`static java.lang.String`	`CLASSBASE_OPTIONS`
`static java.lang.String`	`copyright`
`static int`	`CURSOR_CROSSHAIR`
`static int`	`CURSOR_DEFAULT`
`static int`	`CURSOR_HAND`
`static int`	`CURSOR_MOVE`
`static int`	`CURSOR_WAIT`
`static int`	`CURSOR_ZOOM`
`static java.lang.String[]`	`databases`
`static java.lang.String`	`date`
`static short`	`DEFAULT_BOND_MILLIANGSTROM_RADIUS`
`static float`	`DEFAULT_BOND_RADIUS`
`static float`	`DEFAULT_BOND_TOLERANCE`
`static java.lang.String`	`DEFAULT_FONTFACE`
`static java.lang.String`	`DEFAULT_FONTSTYLE`
`static java.lang.String`	`DEFAULT_HELP_PATH`
`static float`	`DEFAULT_MAX_CONNECT_DISTANCE`
`static float`	`DEFAULT_MIN_BOND_DISTANCE`
`static float`	`DEFAULT_MIN_CONNECT_DISTANCE`
`static int`	`DEFAULT_PERCENT_VDW_ATOM`
`static float`	`DEFAULT_STRUT_RADIUS`
`static java.lang.String`	`EMBEDDED_SCRIPT_TAG`
`static java.lang.String`	`EXPORT_DRIVER_LIST`
`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_RANGE_SIZE`
`static int`	`GROUPID_AMINO_MAX`
`static int`	`GROUPID_ARGININE`
`static int`	`GROUPID_ASPARAGINE`
`static int`	`GROUPID_ASPARTATE`
`static int`	`GROUPID_CYSTEINE`
`static int`	`GROUPID_GLUTAMATE`
`static int`	`GROUPID_GLUTAMINE`
`static int`	`GROUPID_HISTIDINE`
`static int`	`GROUPID_LYSINE`
`static int`	`GROUPID_NUCLEIC_MAX`
`static int`	`GROUPID_PROLINE`
`static int`	`GROUPID_TRYPTOPHAN`
`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 java.lang.String`	`LOAD_ATOM_DATA_TYPES`
`static short`	`madMultipleBondSmallMaximum`
`static int`	`MAXIMUM_AUTO_BOND_COUNT`
`static int`	`MEASURE_DEFAULT_FONTSIZE`
`static int`	`MINIMIZATION_ATOM_MAX`
`static float`	`MINIMIZE_FIXED_RANGE`
`static java.lang.String`	`MODELKIT_ZAP_STRING`
`static java.lang.String`	`MODELKIT_ZAP_TITLE`
`static int`	`MOUSE_NONE`
`static byte`	`MULTIBOND_ALWAYS`
`static byte`	`MULTIBOND_NEVER`
`static byte`	`MULTIBOND_NOTSMALL`
`static byte`	`MULTIBOND_WIREFRAME`
`static java.lang.String`	`NOTE_SCRIPT_FILE`
`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 char[]`	`predefinedGroup1Names`
`static java.lang.String[]`	`predefinedGroup3Names`
`static java.lang.String[]`	`predefinedStatic`
`static java.lang.String[]`	`predefinedVariable`
`static float`	`radiansPerDegree`
`static java.lang.String`	`SCRIPT_EDITOR_IGNORE`
`static int`	`SHAPE_AXES`
`static int`	`SHAPE_BACKBONE`
`static int`	`SHAPE_BALLS`
`static int`	`SHAPE_BBCAGE`
`static int`	`SHAPE_CARTOON`
`static int`	`SHAPE_CONTACT`
`static int`	`SHAPE_DIPOLES`
`static int`	`SHAPE_DOTS`
`static int`	`SHAPE_DRAW`
`static int`	`SHAPE_ECHO`
`static int`	`SHAPE_ELLIPSOIDS`
`static int`	`SHAPE_FRANK`
`static int`	`SHAPE_GEOSURFACE`
`static int`	`SHAPE_HALOS`
`static int`	`SHAPE_HOVER`
`static int`	`SHAPE_HSTICKS`
`static int`	`SHAPE_ISOSURFACE`
`static int`	`SHAPE_LABELS`
`static int`	`SHAPE_LCAOCARTOON`
`static int`	`SHAPE_MAX`
`static int`	`SHAPE_MAX_HAS_ID`
`static int`	`SHAPE_MAX_MESH_COLLECTION`
`static int`	`SHAPE_MAX_SECONDARY`
`static int`	`SHAPE_MAX_SIZE_ZERO_ON_RESTRICT`
`static int`	`SHAPE_MAX_SPECIAL`
`static int`	`SHAPE_MAX_SURFACE`
`static int`	`SHAPE_MEASURES`
`static int`	`SHAPE_MESHRIBBON`
`static int`	`SHAPE_MIN_HAS_ID`
`static int`	`SHAPE_MIN_MESH_COLLECTION`
`static int`	`SHAPE_MIN_SECONDARY`
`static int`	`SHAPE_MIN_SPECIAL`
`static int`	`SHAPE_MIN_SURFACE`
`static int`	`SHAPE_MO`
`static int`	`SHAPE_PLOT3D`
`static int`	`SHAPE_PMESH`
`static int`	`SHAPE_POLYHEDRA`
`static int`	`SHAPE_RIBBONS`
`static int`	`SHAPE_ROCKETS`
`static int`	`SHAPE_SSSTICKS`
`static int`	`SHAPE_STARS`
`static int`	`SHAPE_STICKS`
`static int`	`SHAPE_STRANDS`
`static int`	`SHAPE_STRUTS`
`static int`	`SHAPE_TRACE`
`static int`	`SHAPE_UCCAGE`
`static int`	`SHAPE_VECTORS`
`static java.lang.String[]`	`shapeClassBases`
`static Vector3f[]`	`unitAxisVectors`
`static java.lang.String`	`version`
`static int`	`XY_ZTOP`

Constructor Summary

Constructors
Constructor Description

JmolConstants()

Constructors
Constructor	Description
`JmolConstants()`

Method Summary

All Methods Static Methods Concrete Methods
Modifier and Type	Method	Description
`static boolean`	`checkCarbohydrate(java.lang.String group3)`
`static java.lang.String`	`embedScript(java.lang.String s)`
`static boolean`	`getAminoAcidValenceAndCharge(java.lang.String res, java.lang.String name, int[] ret)`	returns an array if we have special hybridization or charge
`static int`	`getGroup3Count()`
`static java.lang.String`	`getGroup3List()`
`static java.lang.String[][]`	`getPdbBondInfo(int pt)`
`static java.lang.String`	`getShapeClassName(int shapeID, boolean isRenderer)`
`static int`	`getShapeVisibilityFlag(int shapeID)`
`static java.lang.String`	`getSpecialAtomName(int atomID)`
`static int`	`getStandardPdbHydrogenCount(int pt)`
`static boolean`	`isHetero(java.lang.String group3)`
`static boolean`	`isShapeSecondary(int i)`
`static byte`	`lookupSpecialAtomID(java.lang.String atomName)`
`static int`	`shapeTokenIndex(int tok)`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail
- copyright
```
public static final java.lang.String copyright
```
  See Also:
  
  Constant Field Values
- version
```
public static final java.lang.String version
```
- date
```
public static final java.lang.String date
```
- officialRelease
```
public static final boolean officialRelease
```
  See Also:
  
  Constant Field Values
- CLASSBASE_OPTIONS
```
public static final java.lang.String CLASSBASE_OPTIONS
```
  See Also:
  
  Constant Field Values
- DEFAULT_HELP_PATH
```
public static final java.lang.String DEFAULT_HELP_PATH
```
  See Also:
  
  Constant Field Values
- EMBEDDED_SCRIPT_TAG
```
public static final java.lang.String EMBEDDED_SCRIPT_TAG
```
  See Also:
  
  Constant Field Values
- NOTE_SCRIPT_FILE
```
public static final java.lang.String NOTE_SCRIPT_FILE
```
  See Also:
  
  Constant Field Values
- SCRIPT_EDITOR_IGNORE
```
public static final java.lang.String SCRIPT_EDITOR_IGNORE
```
  See Also:
  
  Constant Field Values
- LOAD_ATOM_DATA_TYPES
```
public static final java.lang.String LOAD_ATOM_DATA_TYPES
```
  See Also:
  
  Constant Field Values
- radiansPerDegree
```
public static final float radiansPerDegree
```
  See Also:
  
  Constant Field Values
- allowedQuaternionFrames
```
public static final java.lang.String allowedQuaternionFrames
```
  See Also:
  
  Constant Field Values
- EXPORT_DRIVER_LIST
```
public static final java.lang.String EXPORT_DRIVER_LIST
```
  See Also:
  
  Constant Field Values
- center
```
public static final Vector3f center
```
- axisX
```
public static final Vector3f axisX
```
- axisY
```
public static final Vector3f axisY
```
- axisZ
```
public static final Vector3f axisZ
```
- axisNX
```
public static final Vector3f axisNX
```
- axisNY
```
public static final Vector3f axisNY
```
- axisNZ
```
public static final Vector3f axisNZ
```
- unitAxisVectors
```
public static final Vector3f[] unitAxisVectors
```
- XY_ZTOP
```
public static final int XY_ZTOP
```
  See Also:
  
  Constant Field Values
- DEFAULT_PERCENT_VDW_ATOM
```
public static final int DEFAULT_PERCENT_VDW_ATOM
```
  See Also:
  
  Constant Field Values
- DEFAULT_BOND_RADIUS
```
public static final float DEFAULT_BOND_RADIUS
```
  See Also:
  
  Constant Field Values
- DEFAULT_BOND_MILLIANGSTROM_RADIUS
```
public static final short DEFAULT_BOND_MILLIANGSTROM_RADIUS
```
  See Also:
  
  Constant Field Values
- DEFAULT_STRUT_RADIUS
```
public static final float DEFAULT_STRUT_RADIUS
```
  See Also:
  
  Constant Field Values
- DEFAULT_BOND_TOLERANCE
```
public static final float DEFAULT_BOND_TOLERANCE
```
  See Also:
  
  Constant Field Values
- DEFAULT_MIN_BOND_DISTANCE
```
public static final float DEFAULT_MIN_BOND_DISTANCE
```
  See Also:
  
  Constant Field Values
- DEFAULT_MAX_CONNECT_DISTANCE
```
public static final float DEFAULT_MAX_CONNECT_DISTANCE
```
  See Also:
  
  Constant Field Values
- DEFAULT_MIN_CONNECT_DISTANCE
```
public static final float DEFAULT_MIN_CONNECT_DISTANCE
```
  See Also:
  
  Constant Field Values
- MINIMIZATION_ATOM_MAX
```
public static final int MINIMIZATION_ATOM_MAX
```
  See Also:
  
  Constant Field Values
- MINIMIZE_FIXED_RANGE
```
public static final float MINIMIZE_FIXED_RANGE
```
  See Also:
  
  Constant Field Values
- MOUSE_NONE
```
public static final int MOUSE_NONE
```
  See Also:
  
  Constant Field Values
- MULTIBOND_NEVER
```
public static final byte MULTIBOND_NEVER
```
  See Also:
  
  Constant Field Values
- MULTIBOND_WIREFRAME
```
public static final byte MULTIBOND_WIREFRAME
```
  See Also:
  
  Constant Field Values
- MULTIBOND_NOTSMALL
```
public static final byte MULTIBOND_NOTSMALL
```
  See Also:
  
  Constant Field Values
- MULTIBOND_ALWAYS
```
public static final byte MULTIBOND_ALWAYS
```
  See Also:
  
  Constant Field Values
- MAXIMUM_AUTO_BOND_COUNT
```
public static final int MAXIMUM_AUTO_BOND_COUNT
```
  See Also:
  
  Constant Field Values
- madMultipleBondSmallMaximum
```
public static final short madMultipleBondSmallMaximum
```
  See Also:
  
  Constant Field Values
- ANGSTROMS_PER_BOHR
```
public static final float ANGSTROMS_PER_BOHR
```
  See Also:
  
  Constant Field Values
- altArgbsCpk
```
public static final int[] altArgbsCpk
```
- argbsAmino
```
public static final int[] argbsAmino
```
- argbShapelyBackbone
```
public static final int argbShapelyBackbone
```
  See Also:
  
  Constant Field Values
- argbShapelySpecial
```
public static final int argbShapelySpecial
```
  See Also:
  
  Constant Field Values
- argbShapelyDefault
```
public static final int argbShapelyDefault
```
  See Also:
  
  Constant Field Values
- 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
```
  See Also:
  
  Constant Field Values
- argbsFormalCharge
```
public static final int[] argbsFormalCharge
```
- FORMAL_CHARGE_INDEX_WHITE
```
public static final int FORMAL_CHARGE_INDEX_WHITE
```
  See Also:
  
  Constant Field Values
- 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
```
  See Also:
  
  Constant Field Values
- argbsRwbScale
```
public static final int[] argbsRwbScale
```
- argbsRoygbScale
```
public static final int[] argbsRoygbScale
```
- argbsIsosurfacePositive
```
public static final int argbsIsosurfacePositive
```
  See Also:
  
  Constant Field Values
- argbsIsosurfaceNegative
```
public static final int argbsIsosurfaceNegative
```
  See Also:
  
  Constant Field Values
- ATOMID_MAX
```
public static final int ATOMID_MAX
```
- ATOMID_AMINO_NITROGEN
```
public static final byte ATOMID_AMINO_NITROGEN
```
  See Also:
  
  Constant Field Values
- ATOMID_ALPHA_CARBON
```
public static final byte ATOMID_ALPHA_CARBON
```
  See Also:
  
  Constant Field Values
- ATOMID_CARBONYL_CARBON
```
public static final byte ATOMID_CARBONYL_CARBON
```
  See Also:
  
  Constant Field Values
- ATOMID_CARBONYL_OXYGEN
```
public static final byte ATOMID_CARBONYL_OXYGEN
```
  See Also:
  
  Constant Field Values
- ATOMID_O1
```
public static final byte ATOMID_O1
```
  See Also:
  
  Constant Field Values
- ATOMID_ALPHA_ONLY_MASK
```
public static final int ATOMID_ALPHA_ONLY_MASK
```
  See Also:
  
  Constant Field Values
- ATOMID_PROTEIN_MASK
```
public static final int ATOMID_PROTEIN_MASK
```
  See Also:
  
  Constant Field Values
- ATOMID_O5_PRIME
```
public static final byte ATOMID_O5_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_C4_PRIME
```
public static final byte ATOMID_C4_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_C3_PRIME
```
public static final byte ATOMID_C3_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_O3_PRIME
```
public static final byte ATOMID_O3_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_C1_PRIME
```
public static final byte ATOMID_C1_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_NUCLEIC_MASK
```
public static final int ATOMID_NUCLEIC_MASK
```
  See Also:
  
  Constant Field Values
- ATOMID_NUCLEIC_PHOSPHORUS
```
public static final byte ATOMID_NUCLEIC_PHOSPHORUS
```
  See Also:
  
  Constant Field Values
- ATOMID_PHOSPHORUS_ONLY_MASK
```
public static final int ATOMID_PHOSPHORUS_ONLY_MASK
```
  See Also:
  
  Constant Field Values
- ATOMID_DISTINGUISHING_ATOM_MAX
```
public static final int ATOMID_DISTINGUISHING_ATOM_MAX
```
  See Also:
  
  Constant Field Values
- ATOMID_CARBONYL_OD1
```
public static final byte ATOMID_CARBONYL_OD1
```
  See Also:
  
  Constant Field Values
- ATOMID_CARBONYL_OD2
```
public static final byte ATOMID_CARBONYL_OD2
```
  See Also:
  
  Constant Field Values
- ATOMID_CARBONYL_OE1
```
public static final byte ATOMID_CARBONYL_OE1
```
  See Also:
  
  Constant Field Values
- ATOMID_CARBONYL_OE2
```
public static final byte ATOMID_CARBONYL_OE2
```
  See Also:
  
  Constant Field Values
- ATOMID_SG
```
public static final byte ATOMID_SG
```
  See Also:
  
  Constant Field Values
- ATOMID_N1
```
public static final byte ATOMID_N1
```
  See Also:
  
  Constant Field Values
- ATOMID_C2
```
public static final byte ATOMID_C2
```
  See Also:
  
  Constant Field Values
- ATOMID_N3
```
public static final byte ATOMID_N3
```
  See Also:
  
  Constant Field Values
- ATOMID_C4
```
public static final byte ATOMID_C4
```
  See Also:
  
  Constant Field Values
- ATOMID_C5
```
public static final byte ATOMID_C5
```
  See Also:
  
  Constant Field Values
- ATOMID_C6
```
public static final byte ATOMID_C6
```
  See Also:
  
  Constant Field Values
- ATOMID_O2
```
public static final byte ATOMID_O2
```
  See Also:
  
  Constant Field Values
- ATOMID_N7
```
public static final byte ATOMID_N7
```
  See Also:
  
  Constant Field Values
- ATOMID_C8
```
public static final byte ATOMID_C8
```
  See Also:
  
  Constant Field Values
- ATOMID_N9
```
public static final byte ATOMID_N9
```
  See Also:
  
  Constant Field Values
- ATOMID_N4
```
public static final byte ATOMID_N4
```
  See Also:
  
  Constant Field Values
- ATOMID_N2
```
public static final byte ATOMID_N2
```
  See Also:
  
  Constant Field Values
- ATOMID_N6
```
public static final byte ATOMID_N6
```
  See Also:
  
  Constant Field Values
- ATOMID_C5M
```
public static final byte ATOMID_C5M
```
  See Also:
  
  Constant Field Values
- ATOMID_O6
```
public static final byte ATOMID_O6
```
  See Also:
  
  Constant Field Values
- ATOMID_O4
```
public static final byte ATOMID_O4
```
  See Also:
  
  Constant Field Values
- ATOMID_S4
```
public static final byte ATOMID_S4
```
  See Also:
  
  Constant Field Values
- ATOMID_C7
```
public static final byte ATOMID_C7
```
  See Also:
  
  Constant Field Values
- ATOMID_TERMINATING_OXT
```
public static final byte ATOMID_TERMINATING_OXT
```
  See Also:
  
  Constant Field Values
- ATOMID_H5T_TERMINUS
```
public static final byte ATOMID_H5T_TERMINUS
```
  See Also:
  
  Constant Field Values
- ATOMID_O5T_TERMINUS
```
public static final byte ATOMID_O5T_TERMINUS
```
  See Also:
  
  Constant Field Values
- ATOMID_O1P
```
public static final byte ATOMID_O1P
```
  See Also:
  
  Constant Field Values
- ATOMID_OP1
```
public static final byte ATOMID_OP1
```
  See Also:
  
  Constant Field Values
- ATOMID_O2P
```
public static final byte ATOMID_O2P
```
  See Also:
  
  Constant Field Values
- ATOMID_OP2
```
public static final byte ATOMID_OP2
```
  See Also:
  
  Constant Field Values
- ATOMID_O2_PRIME
```
public static final byte ATOMID_O2_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_H3T_TERMINUS
```
public static final byte ATOMID_H3T_TERMINUS
```
  See Also:
  
  Constant Field Values
- ATOMID_HO3_PRIME
```
public static final byte ATOMID_HO3_PRIME
```
  See Also:
  
  Constant Field Values
- ATOMID_HO5_PRIME
```
public static final byte ATOMID_HO5_PRIME
```
  See Also:
  
  Constant Field Values
- GROUPID_ARGININE
```
public static final int GROUPID_ARGININE
```
  See Also:
  
  Constant Field Values
- GROUPID_ASPARAGINE
```
public static final int GROUPID_ASPARAGINE
```
  See Also:
  
  Constant Field Values
- GROUPID_ASPARTATE
```
public static final int GROUPID_ASPARTATE
```
  See Also:
  
  Constant Field Values
- GROUPID_CYSTEINE
```
public static final int GROUPID_CYSTEINE
```
  See Also:
  
  Constant Field Values
- GROUPID_GLUTAMINE
```
public static final int GROUPID_GLUTAMINE
```
  See Also:
  
  Constant Field Values
- GROUPID_GLUTAMATE
```
public static final int GROUPID_GLUTAMATE
```
  See Also:
  
  Constant Field Values
- GROUPID_HISTIDINE
```
public static final int GROUPID_HISTIDINE
```
  See Also:
  
  Constant Field Values
- GROUPID_LYSINE
```
public static final int GROUPID_LYSINE
```
  See Also:
  
  Constant Field Values
- GROUPID_PROLINE
```
public static final int GROUPID_PROLINE
```
  See Also:
  
  Constant Field Values
- GROUPID_TRYPTOPHAN
```
public static final int GROUPID_TRYPTOPHAN
```
  See Also:
  
  Constant Field Values
- GROUPID_AMINO_MAX
```
public static final int GROUPID_AMINO_MAX
```
  See Also:
  
  Constant Field Values
- GROUPID_NUCLEIC_MAX
```
public static final int GROUPID_NUCLEIC_MAX
```
  See Also:
  
  Constant Field Values
- predefinedGroup3Names
```
public static final java.lang.String[] predefinedGroup3Names
```
- argbsShapely
```
public static final int[] argbsShapely
```
- predefinedGroup1Names
```
public static final char[] predefinedGroup1Names
```
- predefinedVariable
```
public static java.lang.String[] predefinedVariable
```
- predefinedStatic
```
public static java.lang.String[] predefinedStatic
```
- databases
```
public static java.lang.String[] databases
```
- MODELKIT_ZAP_STRING
```
public static final java.lang.String MODELKIT_ZAP_STRING
```
  See Also:
  
  Constant Field Values
- MODELKIT_ZAP_TITLE
```
public static final java.lang.String MODELKIT_ZAP_TITLE
```
  See Also:
  
  Constant Field Values
- ADD_HYDROGEN_TITLE
```
public static final java.lang.String ADD_HYDROGEN_TITLE
```
  See Also:
  
  Constant Field Values
- DEFAULT_FONTFACE
```
public static final java.lang.String DEFAULT_FONTFACE
```
  See Also:
  
  Constant Field Values
- DEFAULT_FONTSTYLE
```
public static final java.lang.String DEFAULT_FONTSTYLE
```
  See Also:
  
  Constant Field Values
- LABEL_MINIMUM_FONTSIZE
```
public static final int LABEL_MINIMUM_FONTSIZE
```
  See Also:
  
  Constant Field Values
- LABEL_MAXIMUM_FONTSIZE
```
public static final int LABEL_MAXIMUM_FONTSIZE
```
  See Also:
  
  Constant Field Values
- LABEL_DEFAULT_FONTSIZE
```
public static final int LABEL_DEFAULT_FONTSIZE
```
  See Also:
  
  Constant Field Values
- LABEL_DEFAULT_X_OFFSET
```
public static final int LABEL_DEFAULT_X_OFFSET
```
  See Also:
  
  Constant Field Values
- LABEL_DEFAULT_Y_OFFSET
```
public static final int LABEL_DEFAULT_Y_OFFSET
```
  See Also:
  
  Constant Field Values
- MEASURE_DEFAULT_FONTSIZE
```
public static final int MEASURE_DEFAULT_FONTSIZE
```
  See Also:
  
  Constant Field Values
- AXES_DEFAULT_FONTSIZE
```
public static final int AXES_DEFAULT_FONTSIZE
```
  See Also:
  
  Constant Field Values
- SHAPE_BALLS
```
public static final int SHAPE_BALLS
```
  See Also:
  
  Constant Field Values
- SHAPE_STICKS
```
public static final int SHAPE_STICKS
```
  See Also:
  
  Constant Field Values
- SHAPE_HSTICKS
```
public static final int SHAPE_HSTICKS
```
  See Also:
  
  Constant Field Values
- SHAPE_SSSTICKS
```
public static final int SHAPE_SSSTICKS
```
  See Also:
  
  Constant Field Values
- SHAPE_STRUTS
```
public static final int SHAPE_STRUTS
```
  See Also:
  
  Constant Field Values
- SHAPE_LABELS
```
public static final int SHAPE_LABELS
```
  See Also:
  
  Constant Field Values
- SHAPE_MEASURES
```
public static final int SHAPE_MEASURES
```
  See Also:
  
  Constant Field Values
- SHAPE_STARS
```
public static final int SHAPE_STARS
```
  See Also:
  
  Constant Field Values
- SHAPE_HALOS
```
public static final int SHAPE_HALOS
```
  See Also:
  
  Constant Field Values
- SHAPE_MIN_SECONDARY
```
public static final int SHAPE_MIN_SECONDARY
```
  See Also:
  
  Constant Field Values
- SHAPE_BACKBONE
```
public static final int SHAPE_BACKBONE
```
  See Also:
  
  Constant Field Values
- SHAPE_TRACE
```
public static final int SHAPE_TRACE
```
  See Also:
  
  Constant Field Values
- SHAPE_CARTOON
```
public static final int SHAPE_CARTOON
```
  See Also:
  
  Constant Field Values
- SHAPE_STRANDS
```
public static final int SHAPE_STRANDS
```
  See Also:
  
  Constant Field Values
- SHAPE_MESHRIBBON
```
public static final int SHAPE_MESHRIBBON
```
  See Also:
  
  Constant Field Values
- SHAPE_RIBBONS
```
public static final int SHAPE_RIBBONS
```
  See Also:
  
  Constant Field Values
- SHAPE_ROCKETS
```
public static final int SHAPE_ROCKETS
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX_SECONDARY
```
public static final int SHAPE_MAX_SECONDARY
```
  See Also:
  
  Constant Field Values
- SHAPE_MIN_SPECIAL
```
public static final int SHAPE_MIN_SPECIAL
```
  See Also:
  
  Constant Field Values
- SHAPE_DOTS
```
public static final int SHAPE_DOTS
```
  See Also:
  
  Constant Field Values
- SHAPE_DIPOLES
```
public static final int SHAPE_DIPOLES
```
  See Also:
  
  Constant Field Values
- SHAPE_VECTORS
```
public static final int SHAPE_VECTORS
```
  See Also:
  
  Constant Field Values
- SHAPE_GEOSURFACE
```
public static final int SHAPE_GEOSURFACE
```
  See Also:
  
  Constant Field Values
- SHAPE_ELLIPSOIDS
```
public static final int SHAPE_ELLIPSOIDS
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX_SIZE_ZERO_ON_RESTRICT
```
public static final int SHAPE_MAX_SIZE_ZERO_ON_RESTRICT
```
  See Also:
  
  Constant Field Values
- SHAPE_POLYHEDRA
```
public static final int SHAPE_POLYHEDRA
```
  See Also:
  
  Constant Field Values
- SHAPE_MIN_HAS_ID
```
public static final int SHAPE_MIN_HAS_ID
```
  See Also:
  
  Constant Field Values
- SHAPE_MIN_MESH_COLLECTION
```
public static final int SHAPE_MIN_MESH_COLLECTION
```
  See Also:
  
  Constant Field Values
- SHAPE_DRAW
```
public static final int SHAPE_DRAW
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX_SPECIAL
```
public static final int SHAPE_MAX_SPECIAL
```
  See Also:
  
  Constant Field Values
- SHAPE_MIN_SURFACE
```
public static final int SHAPE_MIN_SURFACE
```
  See Also:
  
  Constant Field Values
- SHAPE_ISOSURFACE
```
public static final int SHAPE_ISOSURFACE
```
  See Also:
  
  Constant Field Values
- SHAPE_CONTACT
```
public static final int SHAPE_CONTACT
```
  See Also:
  
  Constant Field Values
- SHAPE_LCAOCARTOON
```
public static final int SHAPE_LCAOCARTOON
```
  See Also:
  
  Constant Field Values
- SHAPE_MO
```
public static final int SHAPE_MO
```
  See Also:
  
  Constant Field Values
- SHAPE_PMESH
```
public static final int SHAPE_PMESH
```
  See Also:
  
  Constant Field Values
- SHAPE_PLOT3D
```
public static final int SHAPE_PLOT3D
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX_SURFACE
```
public static final int SHAPE_MAX_SURFACE
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX_MESH_COLLECTION
```
public static final int SHAPE_MAX_MESH_COLLECTION
```
  See Also:
  
  Constant Field Values
- SHAPE_ECHO
```
public static final int SHAPE_ECHO
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX_HAS_ID
```
public static final int SHAPE_MAX_HAS_ID
```
  See Also:
  
  Constant Field Values
- SHAPE_AXES
```
public static final int SHAPE_AXES
```
  See Also:
  
  Constant Field Values
- SHAPE_BBCAGE
```
public static final int SHAPE_BBCAGE
```
  See Also:
  
  Constant Field Values
- SHAPE_UCCAGE
```
public static final int SHAPE_UCCAGE
```
  See Also:
  
  Constant Field Values
- SHAPE_HOVER
```
public static final int SHAPE_HOVER
```
  See Also:
  
  Constant Field Values
- SHAPE_FRANK
```
public static final int SHAPE_FRANK
```
  See Also:
  
  Constant Field Values
- SHAPE_MAX
```
public static final int SHAPE_MAX
```
  See Also:
  
  Constant Field Values
- shapeClassBases
```
public static final java.lang.String[] shapeClassBases
```
- ATOM_IN_FRAME
```
public static final int ATOM_IN_FRAME
```
  See Also:
  
  Constant Field Values
- ATOM_SLABBED
```
public static final int ATOM_SLABBED
```
  See Also:
  
  Constant Field Values
- CURSOR_DEFAULT
```
public static final int CURSOR_DEFAULT
```
  See Also:
  
  Constant Field Values
- CURSOR_HAND
```
public static final int CURSOR_HAND
```
  See Also:
  
  Constant Field Values
- CURSOR_CROSSHAIR
```
public static final int CURSOR_CROSSHAIR
```
  See Also:
  
  Constant Field Values
- CURSOR_MOVE
```
public static final int CURSOR_MOVE
```
  See Also:
  
  Constant Field Values
- CURSOR_WAIT
```
public static final int CURSOR_WAIT
```
  See Also:
  
  Constant Field Values
- CURSOR_ZOOM
```
public static final int CURSOR_ZOOM
```
  See Also:
  
  Constant Field Values
- binaryExtensions
```
public static final java.lang.String binaryExtensions
```
  See Also:
  
  Constant Field Values

Constructor Detail
- JmolConstants
```
public JmolConstants()
```

Method Detail

embedScript

public static java.lang.String embedScript(java.lang.String s)

getSpecialAtomName

public static final java.lang.String getSpecialAtomName(int atomID)

lookupSpecialAtomID

public static byte lookupSpecialAtomID(java.lang.String atomName)

getAminoAcidValenceAndCharge
```
public static boolean getAminoAcidValenceAndCharge(java.lang.String res,
                                                   java.lang.String name,
                                                   int[] ret)
```
returns an array if we have special hybridization or charge

Parameters:

res -

name -

ret - [0] (target valence) may be reduced by one for sp2 for C or O only [1] will be set to 1 if positive (lysine or terminal N) or -1 if negative (OXT) [2] will be set to 2 if sp2 [3] is supplied covalent bond count

Returns:

true for special; false if not

getStandardPdbHydrogenCount

public static int getStandardPdbHydrogenCount(int pt)

getPdbBondInfo

public static java.lang.String[][] getPdbBondInfo(int pt)

checkCarbohydrate
```
public static final boolean checkCarbohydrate(java.lang.String group3)
```
Parameters:

group3 - a potential group3 name

Returns:

whether this is a carbohydrate from the list

getGroup3List

public static java.lang.String getGroup3List()

isHetero

public static final boolean isHetero(java.lang.String group3)

getGroup3Count
```
public static int getGroup3Count()
```

isShapeSecondary

public static final boolean isShapeSecondary(int i)

shapeTokenIndex

public static final int shapeTokenIndex(int tok)

getShapeClassName

public static final java.lang.String getShapeClassName(int shapeID,
                                                       boolean isRenderer)

getShapeVisibilityFlag

public static final int getShapeVisibilityFlag(int shapeID)

Class JmolConstants

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

copyright

version

date

officialRelease

CLASSBASE_OPTIONS

DEFAULT_HELP_PATH

EMBEDDED_SCRIPT_TAG

NOTE_SCRIPT_FILE

SCRIPT_EDITOR_IGNORE

LOAD_ATOM_DATA_TYPES

radiansPerDegree

allowedQuaternionFrames

EXPORT_DRIVER_LIST

center

axisX

axisY

axisZ

axisNX

axisNY

axisNZ

unitAxisVectors

XY_ZTOP

DEFAULT_PERCENT_VDW_ATOM

DEFAULT_BOND_RADIUS

DEFAULT_BOND_MILLIANGSTROM_RADIUS

DEFAULT_STRUT_RADIUS

DEFAULT_BOND_TOLERANCE

DEFAULT_MIN_BOND_DISTANCE

DEFAULT_MAX_CONNECT_DISTANCE

DEFAULT_MIN_CONNECT_DISTANCE

MINIMIZATION_ATOM_MAX

MINIMIZE_FIXED_RANGE

MOUSE_NONE

MULTIBOND_NEVER

MULTIBOND_WIREFRAME

MULTIBOND_NOTSMALL

MULTIBOND_ALWAYS

MAXIMUM_AUTO_BOND_COUNT

madMultipleBondSmallMaximum

ANGSTROMS_PER_BOHR

altArgbsCpk

argbsAmino

argbShapelyBackbone

argbShapelySpecial

argbShapelyDefault

argbsChainAtom

argbsChainHetero

FORMAL_CHARGE_COLIX_RED

FORMAL_CHARGE_COLIX_WHITE

FORMAL_CHARGE_COLIX_BLUE

FORMAL_CHARGE_RANGE_SIZE

argbsFormalCharge

FORMAL_CHARGE_INDEX_WHITE

FORMAL_CHARGE_INDEX_MAX

PARTIAL_CHARGE_COLIX_RED

PARTIAL_CHARGE_COLIX_WHITE

PARTIAL_CHARGE_COLIX_BLUE

PARTIAL_CHARGE_RANGE_SIZE

argbsRwbScale

argbsRoygbScale

argbsIsosurfacePositive

argbsIsosurfaceNegative

ATOMID_MAX

ATOMID_AMINO_NITROGEN

ATOMID_ALPHA_CARBON

ATOMID_CARBONYL_CARBON

ATOMID_CARBONYL_OXYGEN

ATOMID_O1

ATOMID_ALPHA_ONLY_MASK

ATOMID_PROTEIN_MASK

ATOMID_O5_PRIME

ATOMID_C4_PRIME

ATOMID_C3_PRIME

ATOMID_O3_PRIME