Uses of Class
javajs.util.P3

A 4 element axis angle represented by single precision floating point x,y,z,angle components.

Get the endpoints of the best line through N points, where N >= 2

Calculate the intersection of a line with a plane.

Based on a set of centering points, creates a list of lattice points in place.

Compact calculation of the best pane using a simple method discussed at https://stackoverflow.com/questions/12299540/plane-fitting-to-4-or-more-xyz-points (A^T A)^-1 A^T B run three times to ensure that at least one is not perpendicular.

Get the endpoints of the best line through N points, where N >= 2

Calculate the intersection of a line with a plane.

Convert HSL (hue/saturation/luninance) values to RGB

Convert RGB values to HSL (hue/saturation/lightness)

from a list of points, create an array that includes the center point as the first point.

Fills a 4x4 matrix with rotation-translation of mapped points A to B.

Called from TLink and TAtom to find a node with the given symmetry.

fills a solid sphere

carry out various functions of the within() script function

fills a solid sphere

fills a solid sphere

Something has changed atom positions.

MODELKIT ADD @3 ...

get a list of potential H atom positions based on elemental valence and formal charge

called by isosurface and int comparator via atomProperty() and also by getBitsetProperty()

PyMOL will use 1 here for pymolOffset[0] for relative, 0 or absolute.

Carries out a stereochemical inversion through a point, across a plane, or at a chirality center.

Sets the modulation for all atoms in bs.

set in getPointOrPlane

may return null values in some cases

Add hydrogens to a model

Fills a 4x4 matrix with rotation-translation of mapped points A to B.

The major interface to org.jmol.smiles, this method allows for a wide variety of correlation functionality.

The major interface to org.jmol.smiles, this method allows for a wide variety of correlation functionality.

[x, y, z, -x, -y, -z] or [a, b, c, -a, -b, -c]

axisPoints are offset cartesian values.

This class represents an atom in a SmilesMolecule.

Generate a topological SMILES string from a set of faces

determine if an offset cell is a unit translation, so that the space group can be continued

The Point3fi class allows storage of critical information involving an atom, picked bond, or measurement point, including: xyz position screen position screen radius (-1 for a simple point) index (for atoms or for an associated bond that has be picked) associated modelIndex (for measurement points) associated symmetry operation (generating equivalent atoms in UnitCell.java)

Change points references to canonical form used in Triangulator, while also scaling.

Delivers [center a b c] for generation of unit cells from a boundbox

Jmol-specific post-processing of the array data returned by Measure.computeHelicalAxis

Expanded cell notation: 111 - 1000 --> center 5,5,5; range 0 to 9 or -5 to +4 1000000 - 1999999 --> center 50,50,50; range 0 to 99 or -50 to +49 1000000000 - 1999999999 --> center 500, 500, 500; range 0 to 999 or -500 to +499 for example, a 3x3x3 block of 27 cells: {444 666 1} or {1494949 1515151 1} or {1499499499 1501501501 1}

A collection of modulations for a specific atom.

convenience return only after changing fpt

generic entry for a polygon

This method returns data needed by the VRML, X3D, and IDTF/U3D exporters.

A general method for retrieving symmetry information with full capability of the symop() scripting function.

Specific to ActionManagerMT -- for processing SparshUI gestures

RENDERERS ONLY

RENDERERS ONLY