org.jmol.viewer

Class StateCreator

java.lang.Object

org.jmol.viewer.StateCreator

All Implemented Interfaces:

JmolStateCreator

public class StateCreator
extends java.lang.Object
implements JmolStateCreator

Called by reflection only; all state generation script here, for modularization in JavaScript instantiated by reflection only!

Field Summary

Fields

Modifier and Type	Field and Description
private static int	MAX_ACTION_UNDO
private java.util.Map<java.lang.String,BS>	temp
private java.util.Map<java.lang.String,BS>	temp2
private java.util.Map<java.lang.String,BS>	temp3
private boolean	undoWorking
private Viewer	viewer

Constructor Summary

Constructors

Constructor and Description
StateCreator()

Method Summary

Methods

Modifier and Type	Method and Description
private static void	addBs(SB sb, java.lang.String key, BS bs)
private static void	addTickInfo(SB sb, TickInfo tickInfo, boolean addFirst)
private static void	appendCmd(SB s, java.lang.String cmd)
(package private) void	appendLoadStates(SB cmds)
private void	appendTickInfo(java.lang.String myType, SB sb, TickInfo t)
private static java.lang.String	chop(java.lang.String s)
private void	clearTemp()
java.lang.Object	createImagePathCheck(java.lang.String fileName, java.lang.String type, java.lang.String text, byte[] bytes, java.lang.String[] scripts, java.lang.Object appendix, int quality, int width, int height, java.lang.String[] fullPath, boolean doCheck) general routine for creating an image or writing data to a file passes request to statusManager to pass along to app or applet jmolStatusListener interface
java.lang.String	createImageSet(java.lang.String fileName, java.lang.String type, java.lang.String text, byte[] bytes, java.lang.String[] scripts, int quality, int width, int height, BS bsFrames, int nVibes, java.lang.String[] fullPath)
private java.lang.String	createSceneSet(java.lang.String sceneFile, java.lang.String type, int width, int height)
java.lang.String	generateOutputForExport(java.lang.String type, java.lang.String[] fileName, int width, int height)
java.lang.String	getAllSettings(java.lang.String prefix)
private java.util.Map<java.lang.String,java.lang.Object>	getAnimationInfo(AnimationManager am)
private java.lang.String	getAnimState(AnimationManager am, SB sfunc)
java.lang.String	getAtomDefs(java.util.Map<java.lang.String,java.lang.Object> names)
java.lang.String	getAtomicPropertyState(byte taintWhat, BS bsSelected)
void	getAtomicPropertyStateBuffer(SB commands, byte type, BS bs, java.lang.String label, float[] fData)
java.lang.String	getAtomShapeSetState(Shape shape, AtomShape[] bioShapes)
java.lang.String	getAtomShapeState(AtomShape shape)
java.lang.String	getBondState(Shape shape, BS bsOrderSet, boolean reportAll)
private int	getCEState(ColorEncoder p, SB s)
private java.lang.String	getColorState(ColorManager cm, SB sfunc)
java.lang.String	getCommands(java.util.Map<java.lang.String,BS> htDefine, java.util.Map<java.lang.String,BS> htMore, java.lang.String selectCmd)
private static java.lang.String	getCommands2(java.util.Map<java.lang.String,BS> ht, SB s, java.lang.String setPrev, java.lang.String selectCmd)
private void	getDataState(DataManager dm, SB state, SB sfunc, java.lang.String atomProps)
private java.lang.String	getDefaultLabelState(Labels l)
private java.lang.String	getDefinedState(SB sfunc, boolean isAll)
private java.lang.String	getFileState(SB sfunc)
java.lang.String	getFontLineShapeState(java.lang.String s, java.lang.String myType, TickInfo[] tickInfos)
java.lang.String	getFontState(java.lang.String myType, JmolFont font3d)
java.lang.String	getFunctionCalls(java.lang.String selectedFunction)
java.lang.Object	getImageAsWithComment(java.lang.String type, int quality, int width, int height, java.lang.String fileName, java.lang.String[] scripts, java.io.OutputStream os, java.lang.String comment)
java.util.Map<java.lang.String,java.lang.Object>	getInfo(java.lang.Object manager)
java.lang.String	getLoadState(java.util.Map<java.lang.String,java.lang.Object> htParams) these settings are determined when the file is loaded and are kept even though they might later change.
java.lang.String	getMeasurementState(Measures shape, JmolList<Measurement> mList, int measurementCount, JmolFont font3d, TickInfo ti)
java.lang.String	getModelState(SB sfunc, boolean isAll, boolean withProteinStructure)
private java.lang.String	getOutputFileNameFromDialog(java.lang.String fileName, int quality)
java.io.OutputStream	getOutputStream(java.lang.String localName, java.lang.String[] fullPath)
private java.lang.String	getSelectionState(SelectionManager sm, SB sfunc)
void	getShapeSetState(AtomShape as, Shape shape, int monomerCount, Group[] monomers, BS bsSizeDefault, java.util.Map<java.lang.String,BS> temp, java.util.Map<java.lang.String,BS> temp2)
private void	getShapeState(SB commands, boolean isAll, int iShape)
java.lang.String	getShapeState(Shape shape)
java.lang.String	getSpecularState()
java.lang.String	getSpinState(boolean isAll)
java.lang.String	getStateScript(java.lang.String type, int width, int height)
private java.lang.String	getTextState(Text t)
java.lang.String	getTrajectoryState()
private java.lang.String	getVariableState(StateManager.GlobalSettings global, SB sfunc)
private java.lang.String	getViewState(TransformManager tm, SB sfunc)
private java.lang.String	getWindowState(SB sfunc, int width, int height)
java.lang.Object	getWrappedState(java.lang.String fileName, java.lang.String[] scripts, boolean isImage, boolean asJmolZip, int width, int height)
private static boolean	isTainted(BS[] tainted, int atomIndex, byte type)
void	logToFile(java.lang.String data)
void	openFileAsync(java.lang.String fileName, boolean pdbCartoons)
void	quickScript(java.lang.String script)
void	setViewer(Viewer viewer)
void	showEditor(java.lang.String[] file_text)
java.lang.String	streamFileData(java.lang.String fileName, java.lang.String type, java.lang.String type2, int modelIndex, java.lang.Object[] parameters)
void	syncScript(java.lang.String script, java.lang.String applet, int port)
void	undoMoveAction(int action, int n)
void	undoMoveActionClear(int taintedAtom, int type, boolean clearRedo)
private java.lang.String	writeCurrentFile(java.io.OutputStream os)
private boolean	writeFrame(int n, java.lang.String froot, java.lang.String fext, java.lang.String[] fullPath, java.lang.String type, int quality, int width, int height, SB sb)

Methods inherited from class java.lang.Object

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

Field Detail

viewer

private Viewer viewer

temp

private java.util.Map<java.lang.String,BS> temp

temp2

private java.util.Map<java.lang.String,BS> temp2

temp3

private java.util.Map<java.lang.String,BS> temp3

undoWorking

private boolean undoWorking

MAX_ACTION_UNDO

private static final int MAX_ACTION_UNDO

See Also:

Constant Field Values

Constructor Detail

StateCreator

public StateCreator()

Method Detail

setViewer

public void setViewer(Viewer viewer)

Specified by:

setViewer in interface JmolStateCreator

getWrappedState

public java.lang.Object getWrappedState(java.lang.String fileName,
                               java.lang.String[] scripts,
                               boolean isImage,
                               boolean asJmolZip,
                               int width,
                               int height)

Specified by:

getWrappedState in interface JmolStateCreator

getStateScript

public java.lang.String getStateScript(java.lang.String type,
                              int width,
                              int height)

Specified by:

getStateScript in interface JmolStateCreator

getDefinedState

private java.lang.String getDefinedState(SB sfunc,
                               boolean isAll)

getModelState

public java.lang.String getModelState(SB sfunc,
                             boolean isAll,
                             boolean withProteinStructure)

Specified by:

getModelState in interface JmolStateCreator

getShapeState

private void getShapeState(SB commands,
                 boolean isAll,
                 int iShape)

getWindowState

private java.lang.String getWindowState(SB sfunc,
                              int width,
                              int height)

getSpecularState

public java.lang.String getSpecularState()

Specified by:

getSpecularState in interface JmolStateCreator

getFileState

private java.lang.String getFileState(SB sfunc)

getDataState

private void getDataState(DataManager dm,
                SB state,
                SB sfunc,
                java.lang.String atomProps)

getColorState

private java.lang.String getColorState(ColorManager cm,
                             SB sfunc)

getCEState

private int getCEState(ColorEncoder p,
             SB s)

getAnimState

private java.lang.String getAnimState(AnimationManager am,
                            SB sfunc)

getVariableState

private java.lang.String getVariableState(StateManager.GlobalSettings global,
                                SB sfunc)

getDefaultLabelState

private java.lang.String getDefaultLabelState(Labels l)

getSelectionState

private java.lang.String getSelectionState(SelectionManager sm,
                                 SB sfunc)

getTrajectoryState

public java.lang.String getTrajectoryState()

Specified by:

getTrajectoryState in interface JmolStateCreator

getViewState

private java.lang.String getViewState(TransformManager tm,
                            SB sfunc)

getSpinState

public java.lang.String getSpinState(boolean isAll)

Specified by:

getSpinState in interface JmolStateCreator

Parameters:

isAll -

Returns:

spin state

getInfo

public java.util.Map<java.lang.String,java.lang.Object> getInfo(java.lang.Object manager)

Specified by:

getInfo in interface JmolStateCreator

getAnimationInfo

private java.util.Map<java.lang.String,java.lang.Object> getAnimationInfo(AnimationManager am)

getCommands

public java.lang.String getCommands(java.util.Map<java.lang.String,BS> htDefine,
                           java.util.Map<java.lang.String,BS> htMore,
                           java.lang.String selectCmd)

Specified by:

getCommands in interface JmolStateCreator

getCommands2

private static java.lang.String getCommands2(java.util.Map<java.lang.String,BS> ht,
                            SB s,
                            java.lang.String setPrev,
                            java.lang.String selectCmd)

appendCmd

private static void appendCmd(SB s,
             java.lang.String cmd)

addBs

private static void addBs(SB sb,
         java.lang.String key,
         BS bs)

getFontState

public java.lang.String getFontState(java.lang.String myType,
                            JmolFont font3d)

Specified by:

getFontState in interface JmolStateCreator

getFontLineShapeState

public java.lang.String getFontLineShapeState(java.lang.String s,
                                     java.lang.String myType,
                                     TickInfo[] tickInfos)

Specified by:

getFontLineShapeState in interface JmolStateCreator

appendTickInfo

private void appendTickInfo(java.lang.String myType,
                  SB sb,
                  TickInfo t)

addTickInfo

private static void addTickInfo(SB sb,
               TickInfo tickInfo,
               boolean addFirst)

getShapeSetState

public void getShapeSetState(AtomShape as,
                    Shape shape,
                    int monomerCount,
                    Group[] monomers,
                    BS bsSizeDefault,
                    java.util.Map<java.lang.String,BS> temp,
                    java.util.Map<java.lang.String,BS> temp2)

Specified by:

getShapeSetState in interface JmolStateCreator

getMeasurementState

public java.lang.String getMeasurementState(Measures shape,
                                   JmolList<Measurement> mList,
                                   int measurementCount,
                                   JmolFont font3d,
                                   TickInfo ti)

Specified by:

getMeasurementState in interface JmolStateCreator

getBondState

public java.lang.String getBondState(Shape shape,
                            BS bsOrderSet,
                            boolean reportAll)

Specified by:

getBondState in interface JmolStateCreator

clearTemp

private void clearTemp()

getAtomShapeSetState

public java.lang.String getAtomShapeSetState(Shape shape,
                                    AtomShape[] bioShapes)

Specified by:

getAtomShapeSetState in interface JmolStateCreator

getShapeState

public java.lang.String getShapeState(Shape shape)

Specified by:

getShapeState in interface JmolStateCreator

getTextState

private java.lang.String getTextState(Text t)

getLoadState

public java.lang.String getLoadState(java.util.Map<java.lang.String,java.lang.Object> htParams)

these settings are determined when the file is loaded and are kept even though they might later change. So we list them here and ALSO let them be defined in the settings. 10.9.98 missed this.

Specified by:

getLoadState in interface JmolStateCreator

Parameters:

htParams -

Returns:

script command

getAllSettings

public java.lang.String getAllSettings(java.lang.String prefix)

Specified by:

getAllSettings in interface JmolStateCreator

chop

private static java.lang.String chop(java.lang.String s)

getAtomShapeState

public java.lang.String getAtomShapeState(AtomShape shape)

Specified by:

getAtomShapeState in interface JmolStateCreator

getFunctionCalls

public java.lang.String getFunctionCalls(java.lang.String selectedFunction)

Specified by:

getFunctionCalls in interface JmolStateCreator

isTainted

private static boolean isTainted(BS[] tainted,
                int atomIndex,
                byte type)

getAtomicPropertyState

public java.lang.String getAtomicPropertyState(byte taintWhat,
                                      BS bsSelected)

Specified by:

getAtomicPropertyState in interface JmolStateCreator

getAtomicPropertyStateBuffer

public void getAtomicPropertyStateBuffer(SB commands,
                                byte type,
                                BS bs,
                                java.lang.String label,
                                float[] fData)

Specified by:

getAtomicPropertyStateBuffer in interface JmolStateCreator

undoMoveAction

public void undoMoveAction(int action,
                  int n)

Specified by:

undoMoveAction in interface JmolStateCreator

undoMoveActionClear

public void undoMoveActionClear(int taintedAtom,
                       int type,
                       boolean clearRedo)

Specified by:

undoMoveActionClear in interface JmolStateCreator

appendLoadStates

void appendLoadStates(SB cmds)

createSceneSet

private java.lang.String createSceneSet(java.lang.String sceneFile,
                              java.lang.String type,
                              int width,
                              int height)

createImageSet

public java.lang.String createImageSet(java.lang.String fileName,
                              java.lang.String type,
                              java.lang.String text,
                              byte[] bytes,
                              java.lang.String[] scripts,
                              int quality,
                              int width,
                              int height,
                              BS bsFrames,
                              int nVibes,
                              java.lang.String[] fullPath)

Specified by:

createImageSet in interface JmolStateCreator

writeFrame

private boolean writeFrame(int n,
                 java.lang.String froot,
                 java.lang.String fext,
                 java.lang.String[] fullPath,
                 java.lang.String type,
                 int quality,
                 int width,
                 int height,
                 SB sb)

createImagePathCheck

public java.lang.Object createImagePathCheck(java.lang.String fileName,
                                    java.lang.String type,
                                    java.lang.String text,
                                    byte[] bytes,
                                    java.lang.String[] scripts,
                                    java.lang.Object appendix,
                                    int quality,
                                    int width,
                                    int height,
                                    java.lang.String[] fullPath,
                                    boolean doCheck)

general routine for creating an image or writing data to a file passes request to statusManager to pass along to app or applet jmolStatusListener interface

Specified by:

createImagePathCheck in interface JmolStateCreator

Parameters:

fileName - starts with ? --> use file dialog; null --> to clipboard

type - PNG, JPG, etc.

text - String to output

bytes - byte[] or null if an image

scripts -

appendix - byte[] or String

quality - Integer.MIN_VALUE --> not an image

width - image width

height - image height

fullPath -

doCheck -

Returns:

null (canceled) or a message starting with OK or an error message

syncScript

public void syncScript(java.lang.String script,
              java.lang.String applet,
              int port)

Specified by:

syncScript in interface JmolStateCreator

quickScript

public void quickScript(java.lang.String script)

Specified by:

quickScript in interface JmolStateCreator

generateOutputForExport

public java.lang.String generateOutputForExport(java.lang.String type,
                                       java.lang.String[] fileName,
                                       int width,
                                       int height)

Specified by:

generateOutputForExport in interface JmolStateCreator

getOutputFileNameFromDialog

private java.lang.String getOutputFileNameFromDialog(java.lang.String fileName,
                                           int quality)

getImageAsWithComment

public java.lang.Object getImageAsWithComment(java.lang.String type,
                                     int quality,
                                     int width,
                                     int height,
                                     java.lang.String fileName,
                                     java.lang.String[] scripts,
                                     java.io.OutputStream os,
                                     java.lang.String comment)

Specified by:

getImageAsWithComment in interface JmolStateCreator

streamFileData

public java.lang.String streamFileData(java.lang.String fileName,
                              java.lang.String type,
                              java.lang.String type2,
                              int modelIndex,
                              java.lang.Object[] parameters)

Specified by:

streamFileData in interface JmolStateCreator

writeCurrentFile

private java.lang.String writeCurrentFile(java.io.OutputStream os)

getOutputStream

public java.io.OutputStream getOutputStream(java.lang.String localName,
                                   java.lang.String[] fullPath)

Specified by:

getOutputStream in interface JmolStateCreator

openFileAsync

public void openFileAsync(java.lang.String fileName,
                 boolean pdbCartoons)

Specified by:

openFileAsync in interface JmolStateCreator

showEditor

public void showEditor(java.lang.String[] file_text)

Specified by:

showEditor in interface JmolStateCreator

logToFile

public void logToFile(java.lang.String data)

Specified by:

logToFile in interface JmolStateCreator

getAtomDefs

public java.lang.String getAtomDefs(java.util.Map<java.lang.String,java.lang.Object> names)

Specified by:

getAtomDefs in interface JmolStateCreator