Package org.jmol.modelset

Class Measurement

java.lang.Object

org.jmol.modelset.Measurement

Direct Known Subclasses:

MeasurementPending

public class Measurement
extends Object

Field Summary

Fields

Modifier and Type	Field	Description
short	colix
int	count
int[]	countPlusIndices
float	fixedValue
int	index
boolean	isHidden
private boolean	isPending
boolean	isTrajectory
boolean	isValid
boolean	isVisible
short	labelColix
int	mad
ModelSet	ms
private String	newUnits
static int	NMR_DC
static int	NMR_JC
static int	NMR_NOE_OR_J
static int	NMR_NOT
String	property
Point3fi[]	pts
javajs.util.P3	renderArc
javajs.util.A4	renderAxis
String	strFormat
private String	strMeasurement
private boolean	tainted
Text	text
String	thisID
TickInfo	tickInfo
int	traceX
int	traceY
private String	type
String	units
float	value
private Viewer	vwr

Constructor Summary

Constructors

Constructor	Description
Measurement()

Method Summary

Modifier and Type	Method	Description
private void	checkJ(String units)
static int	find(javajs.util.Lst<Measurement> measurements, Measurement m)
private static String	fixUnits(String units)
float	fixValue(String units, boolean andRound)
private String	formatAngle(float angle)
private String	formatDistance(String units)
void	formatMeasurement(String units)
void	formatMeasurementAs(String strFormat, String units, boolean useDefault)
private String	formatString(float value, String units, String label)
Point3fi	getAtom(int n)
int	getAtomIndex(int n)
String	getInfoAsString(String units)
String	getLabel(int i, boolean asBitSet, boolean withModelIndex)
private String	getLabelString()
int	getLastIndex()
float	getMeasurement(Point3fi[] pts)
String	getMeasurementScript(String sep, boolean withModelIndex)	Used by MouseManager and Picking Manager to build the script
float	getPropMeasurement(Point3fi[] pts)
String	getString()
String	getStringDetail()
(package private) String	getStringUsing(Viewer vwr, String strFormat, String units)
boolean	isConnected(Atom[] atoms, int count)
boolean	isInRange(RadiusData radiusData, float value)
boolean	isIntramolecular(Atom[] atoms, int count)
boolean	isMin(Map<String,Integer> htMin)
boolean	isTainted()
static boolean	isUnits(String s)
boolean	isValid()
static int	nmrType(String units)
void	reformatDistanceIfSelected()
void	refresh(Point3fi[] pts)
boolean	sameAs(int i, int j)
private boolean	sameAsIJ(int[] atoms, Point3fi[] points, int i, int j)
boolean	sameAsPoints(int[] indices, Point3fi[] points)
void	setCount(int count)
protected void	setCountM(int count)
Measurement	setM(ModelSet modelSet, Measurement m, float value, short colix, String strFormat, int index)
void	setModelIndex(short modelIndex)
Measurement	setPoints(ModelSet modelSet, int[] indices, Point3fi[] points, TickInfo tickInfo)
String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

thisID

public String thisID

ms

public ModelSet ms

index

public int index

isVisible

public boolean isVisible

isHidden

public boolean isHidden

isTrajectory

public boolean isTrajectory

isValid

public boolean isValid

colix

public short colix

labelColix

public short labelColix

mad

public int mad

tickInfo

public TickInfo tickInfo

traceX

public int traceX

traceY

public int traceY

count

public int count

countPlusIndices

public int[] countPlusIndices

pts

public Point3fi[] pts

value

public float value

strFormat

public String strFormat

property

public String property

units

public String units

text

public Text text

vwr

private Viewer vwr

strMeasurement

private String strMeasurement

type

private String type

tainted

private boolean tainted

renderAxis

public javajs.util.A4 renderAxis

renderArc

public javajs.util.P3 renderArc

newUnits

private String newUnits

fixedValue

public float fixedValue

isPending

private boolean isPending

NMR_NOT

public static final int NMR_NOT

See Also:

Constant Field Values

NMR_DC

public static final int NMR_DC

See Also:

Constant Field Values

NMR_JC

public static final int NMR_JC

See Also:

Constant Field Values

NMR_NOE_OR_J

public static final int NMR_NOE_OR_J

See Also:

Constant Field Values

Constructor Detail

Measurement

public Measurement()

Method Detail

isTainted

public boolean isTainted()

setM

public Measurement setM(ModelSet modelSet,
                        Measurement m,
                        float value,
                        short colix,
                        String strFormat,
                        int index)

setPoints

public Measurement setPoints(ModelSet modelSet,
                             int[] indices,
                             Point3fi[] points,
                             TickInfo tickInfo)

setCount

public void setCount(int count)

setCountM

protected void setCountM(int count)

getAtomIndex

public int getAtomIndex(int n)

getAtom

public Point3fi getAtom(int n)

getLastIndex

public int getLastIndex()

getString

public String getString()

toString

public String toString()

Overrides:

toString in class Object

getStringUsing

String getStringUsing(Viewer vwr,
                      String strFormat,
                      String units)

getStringDetail

public String getStringDetail()

refresh

public void refresh(Point3fi[] pts)

getMeasurementScript

public String getMeasurementScript(String sep,
                                   boolean withModelIndex)

Used by MouseManager and Picking Manager to build the script

Parameters:

sep -

withModelIndex - is needed for points only

Returns:

measure ((1}) ({2})....

formatMeasurementAs

public void formatMeasurementAs(String strFormat,
                                String units,
                                boolean useDefault)

formatMeasurement

public void formatMeasurement(String units)

reformatDistanceIfSelected

public void reformatDistanceIfSelected()

formatDistance

private String formatDistance(String units)

Parameters:

units - from MEASURE or measure()

Returns:

fixUnits

private static String fixUnits(String units)

fixValue

public float fixValue(String units,
                      boolean andRound)

Parameters:

units - final units

andRound -

Returns:

float value

checkJ

private void checkJ(String units)

nmrType

public static int nmrType(String units)

formatAngle

private String formatAngle(float angle)

getLabelString

private String getLabelString()

formatString

private String formatString(float value,
                            String units,
                            String label)

sameAsPoints

public boolean sameAsPoints(int[] indices,
                            Point3fi[] points)

sameAsIJ

private boolean sameAsIJ(int[] atoms,
                         Point3fi[] points,
                         int i,
                         int j)

sameAs

public boolean sameAs(int i,
                      int j)

getPropMeasurement

public float getPropMeasurement(Point3fi[] pts)

getMeasurement

public float getMeasurement(Point3fi[] pts)

getLabel

public String getLabel(int i,
                       boolean asBitSet,
                       boolean withModelIndex)

setModelIndex

public void setModelIndex(short modelIndex)

isValid

public boolean isValid()

find

public static int find(javajs.util.Lst<Measurement> measurements,
                       Measurement m)

isConnected

public boolean isConnected(Atom[] atoms,
                           int count)

getInfoAsString

public String getInfoAsString(String units)

isInRange

public boolean isInRange(RadiusData radiusData,
                         float value)

isIntramolecular

public boolean isIntramolecular(Atom[] atoms,
                                int count)

isMin

public boolean isMin(Map<String,Integer> htMin)

isUnits

public static boolean isUnits(String s)