Package org.jmol.script
Class SV
java.lang.Object
org.jmol.script.T
org.jmol.script.SV
- All Implemented Interfaces:
JSONEncodable
ScriptVariable class
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Nested Class Summary
Nested Classes -
Field Summary
FieldsModifier and TypeFieldDescriptionstatic final intstatic final intstatic final intstatic final intstatic final intstatic final intstatic final intstatic final intstatic final intintstatic final SVstatic final SVstatic final SVFields inherited from class org.jmol.script.T
__, _args, abs, absolute, acos, add, addhydrogens, adpmax, adpmin, align, all, allconnected, allfloat, allowaudio, allowembeddedscripts, allowgestures, allowkeystrokes, allowmodelkit, allowmoveatoms, allowmultitouch, allowrotateselected, altloc, ambientocclusion, ambientpercent, amino, andequals, angle, angstroms, animation, animationfps, animationmode, anisotropy, antialiasdisplay, antialiasimages, antialiastranslucent, apivot, append, appendnew, appletproxy, applysymmetrytobonds, arc, area, aromatic, array, arrow, as, assign, astrType, async, atomExpressionCommand, atomicorbital, atomid, atomindex, atomname, atomno, atompicking, atomproperty, atoms, atomtype, atomtypes, atomx, atomy, atomz, audio, auto, autobond, autofps, autoplaymovie, average, axes, axescolor, axesmode, axesmolecular, axesoffset, axesorientationrasmol, axesscale, axesunitcell, axeswindow, axis, axis1color, axis2color, axis3color, axisangle, babel, babel21, back, backbone, background, backgroundcolor, backgroundmodel, backlit, backshell, balls, barb, barray, basemodel, basepair, best, beta, bin, binary, bind, bitset, blockdata, bondcount, bonded, bondingradius, bondingversion, bondmode, bondmodeor, bondorder, bondpicking, bondradiusmilliangstroms, bonds, bondset, bondtolerance, booleanparam, bottom, boundbox, boundboxcolor, branch, breakcmd, brillouin, cache, calculate, cameradepth, cancel, cap, capture, carbohydrate, cartoon, cartoonbaseedges, cartoonblockheight, cartoonblocks, cartoonladders, cartoonribose, cartoonrockets, cartoonsfancy, cartoonsteps, casecmd, catchcmd, cavity, cd, cell, celshading, celshadingpower, center, centerat, centroid, cgo, chain, chaincasesensitive, chainno, check, checkcir, chemical, chemicalshift, chirality, ciprule, ciprule6full, circle, clash, clear, clickable, clipboard, col, collapsed, colon, color, colorrasmol, colorscheme, comma, command, commands, comparator, compare, configuration, connect, connected, console, constraint, contact, context, contextdepthmax, continuecmd, contour, contourlines, contours, coord, corners, cos, count, covalentradius, create, criterion, cross, crossed, currentlocalpath, curve, cutoff, cylinder, data, dataseparator, debug, debughigh, debugscript, decimal, defaultanglelabel, defaultcmd, defaultcolorscheme, defaultdirectory, defaultdistancelabel, defaultdrawarrowscale, defaultdropscript, defaultlabelpdb, defaultlabelxyz, defaultlattice, defaultloadfilter, defaultloadscript, defaultON, defaults, defaultstructuredssp, defaulttorsionlabel, defaulttranslucent, defaultvdw, define, delay, delaymaximumms, delete, density, deprecatedparam, depth, diameter, diffusepercent, dipole, dipolescale, direction, disablepopupmenu, discrete, displacement, display, displaycellparameters, displayed, distance, distancefactor, div, divide, dna, dollarsign, domains, dot, dotdensity, dots, dotscale, dotsselectedonly, dotsurface, dotted, doubleprecision, downsample, dragselected, draw, drawfontsize, drawhover, drawing, drawpicking, dssp, dsspcalchydrogen, dssr, dynamicmeasurements, eccentricity, echo, ed, edges, edgesonly, eds, edsdiff, element, elementkey, elemisono, elemno, ellipsoid, ellipsoidarcs, ellipsoidarrows, ellipsoidaxes, ellipsoidaxisdiameter, ellipsoidball, ellipsoiddotcount, ellipsoiddots, ellipsoidfill, elsecmd, elseif, end, endifcmd, energy, energyunits, error, eta, eval, exit, exitjmol, exportscale, expressionBegin, expressionEnd, facecenteroffset, file, filecachedirectory, filecaching, fill, filter, find, first, fixed, fixedtemp, flat, floatparam, floatproperty, flowCommand, font, fontcaching, fontscaling, fontsize, forceautobond, forcefield, forcmd, formalcharge, format, fps, fractionalrelative, fracx, fracxyz, fracy, fracz, frame, frank, from, front, frontedges, frontlit, frontonly, full, fullplane, fullylit, function, functionxy, functionxyz, fux, fuxyz, fuy, fuz, geosurface, gestureswipefactor, getproperty, gotocmd, greyscalerendering, gridpoints, group, group1, groupid, groupindex, halo, hash, hbond, hbondhxdistancemaximum, hbondnodistancemaximum, hbondsangleminimum, hbondsbackbone, hbondsrasmol, hbondssolid, helix, helix310, helixalpha, helixpi, helixstep, help, helppath, hermitelevel, hetero, hidden, hiddenlinesdashed, hide, hidenameinpopup, hidenavigationpoint, hidenotselected, highlight, highresolution, history, historylevel, hkl, homo, hover, hoverdelay, hoverlabel, hydrogen, hydrophobicity, id, identifier, identify, ifcmd, ignore, image, imagestate, implicitStringCommand, in, inchi, inchikey, increment, info, infofontsize, initialize, inline, inscode, insertion, insideout, integer, interior, intermolecular, internal, intersection, intparam, intproperty, intramolecular, intValue, invertSelected, isaromatic, iskiosk, isosurface, isosurfacekey, isosurfacepropertysmoothing, isosurfacepropertysmoothingpower, javascript, jmol, jmolinjspecview, join, json, justifymeasurements, keys, label, labelkey, labelpointerwidth, language, languagetranslation, last, lattice, lcaocartoon, leadatom, left, leftbrace, leftdivide, leftparen, leftsquare, legacyautobonding, legacyhaddition, legacyjavafloat, length, lighting, line, linedata, lines, link, list, listf, load, loadatomdatatolerance, loadformat, loadligandformat, lobe, log, logcommands, logfile, loggestures, loglevel, lonepair, loop, lp, lumo, macro, macrodirectory, magneticshielding, manifest, mapproperty, mass, mathExpressionCommand, mathfunc, mathop, mathproperty, matrix, matrix3f, matrix4f, max, maxset, measure, measureallmodels, measurementlabels, measurementnumbers, measurements, measurementunits, menu, mep, mesh, meshRibbon, meshscale, message, messagestylechime, middle, min, minbonddistance, minimizationcriterion, minimizationmaxatoms, minimizationrefresh, minimizationreportsteps, minimizationsilent, minimizationsteps, minimize, minmaxmask, minpixelselradius, minset, minus, minusMinus, misc, mlp, mo, mode, mode2d, model, modelbased, modelindex, modelkitmode, modify, modifyorcreate, modo, modt1, modt2, modt3, modulateoccupancy, modulation, modulationscale, modx, modxyz, mody, modz, molecular, molecule, monitorenergy, monomer, morph, mouse, mousedragfactor, mousewheelfactor, move, moveto, movie, mrc, msms, mul, mul3, multiplebondbananas, multiplebondradiusfactor, multiplebondspacing, multiprocessor, mutate, nada, name, navfps, navigate, navigationdepth, navigationmode, navigationperiodic, navigationslab, navigationspeed, navx, navy, navz, nbo, nbocharges, nci, next, nihresolverformat, nmr, nmrpredictformat, nmrurlformat, noArgs, nobackshell, nocontourlines, nocross, nodebug, nodelay, nodots, noedges, nofill, nohead, noload, nomesh, none, noplane, normal, notfrontonly, notriangles, now, nucleic, obj, object, occupancy, occupancythreshold, off, offset, offsetside, omega, on, once, only, opAnd, opAND, opaque, opEQ, opGE, opGT, opIf, opLE, opLIKE, opLT, opNE, opNot, opOr, options, opToggle, opXor, orbital, orientation, origin, out, packed, palindrome, parallel, parameters, paramTypes, partialcharge, partialdots, particleradius, path, pathforallfiles, pattern, pause, pdb, pdbaddhydrogens, pdbgetheader, pdbheader, pdbsequential, per, percent, percentvdwatom, period, perpendicular, perper, perspectivedepth, perspectivemodel, phase, phi, phongexponent, picking, pickingspinrate, pickingstyle, picklabel, pivot, pivot2, planarparam, plane, platformspeed, play, playrev, plot, plot3d, plus, plusPlus, pmesh, pocket, point, point3f, point4f, pointgroup, pointgroupdistancetolerance, pointgrouplineartolerance, pointsperangstrom, polygon, polyhedra, polymer, polymerlength, pop, predefinedset, preservestate, prev, print, privat, probe, process, prompt, property, propertyatomnumbercolumncount, propertyatomnumberfield, propertycolorscheme, propertydatacolumncount, propertydatafield, PROPERTYFLAGS, propselector, protein, psi, purine, push, pymol, pyrimidine, quaternion, quaternionframe, quit, rad, radical, radius, ramachandran, random, range, rangeselected, rasmol, redo, redomove, reference, refresh, refreshing, remove, repaintwaitms, replace, reset, residue, resno, resolution, restore, restrict, resume, returncmd, reverse, reversecolor, rewind, ribbon, ribbonaspectratio, ribbonborder, right, rightbrace, rightparen, rightsquare, rmsd, rna, rna3d, rock, rocket, rocketbarrels, rotate, rotate45, rotateSelected, rotation, rotationradius, row, rubberband, rxyz, sasurface, save, saved, saveproteinstructurestate, scale, scale3d, scaleangstromsperinch, scene, screenx, screenxyz, screeny, screenz, script, scriptCommand, scriptqueue, scriptreportinglevel, search, select, selectallmodels, selected, selectedfloat, selecthetero, selecthydrogen, selection, selectionhalos, semicolon, seqcode, seqid, sequence, set, setparam, settable, shape, shapeCommand, shapely, sheet, sheetsmoothing, show, showaxes, showboundbox, showfrank, showhiddenselectionhalos, showhydrogens, showkeystrokes, showmeasurements, showmodvecs, showmultiplebonds, shownavigationpointalways, showscript, showtiming, showunitcell, showunitcelldetails, sidechain, sigma, sign, silent, sin, site, size, slab, slabbyatom, slabbymolecule, slabenabled, slabrange, smallmoleculemaxatoms, smartaromatic, smiles, smiles2dimageformat, smilesurlformat, solid, solvent, solventprobe, solventproberadius, sort, spacebeforesquare, spacefill, spacegroup, spec_alternate, spec_atom, spec_chain, spec_model, spec_model2, spec_name_pattern, spec_resid, spec_seqcode, spec_seqcode_range, specialposition, specular, specularexponent, specularpercent, specularpower, sphere, spin, spine, spinfps, spinop, spinx, spiny, spinz, split, sqrt, squared, ssbond, ssbondsbackbone, star, starwidth, state, statusreporting, stddev, stdinchi, stdinchikey, step, stereo, stereodegrees, stop, straightness, strandcount, strandcountformeshribbon, strandcountforstrands, strands, string, strparam, strproperty, strucid, strucno, structure, strutdefaultradius, strutlengthmaximum, struts, strutsmultiple, strutspacing, sub, subset, substructure, subsystem, sum, sum2, supercell, surface, surfacedistance, switchcmd, symbol, symmetry, symmetryhermannmauguin, symop, sync, syncmouse, syncscript, tan, temperature, tensor, testflag1, testflag2, testflag3, testflag4, theta, this_, thismodel, throwcmd, ticks, timeout, times, timestimes, title, titleformat, to, togglelabel, tok, tokenAll, tokenAnd, tokenAndFALSE, tokenAndSpec, tokenArrayClose, tokenArrayOpen, tokenArraySquare, tokenColon, tokenComma, tokenConnected, tokenCoordinateBegin, tokenCoordinateEnd, tokenDefineString, tokenDivide, tokenEquals, tokenExpressionBegin, tokenExpressionEnd, tokenIf, tokenLeftBrace, tokenLeftParen, tokenLength, tokenMinus, tokenMul3, tokenOff, tokenOn, tokenOpIf, tokenOr, tokenOrTRUE, tokenPlus, tokenRightBrace, tokenRightParen, tokenScript, tokenSet, tokenSetArray, tokenSetCmd, tokenSetProperty, tokenSetVar, tokenSpaceBeforeSquare, tokenSwitch, tokenTimes, top, torsion, trace, tracealpha, trajectory, transform, translate, translateSelected, translation, translucent, triangles, trim, trycmd, twistedsheets, type, unaryMinus, unbind, undo, undoauto, undomax, undomove, unitcell, unitcellcolor, unitx, unitxyz, unity, unitz, url, useminimizationthread, usenumberlocalization, user, usercolorscheme, val, valence, validation, value, vanderwaals, var, variable, variables, varray, vector, vectorscale, vectorscentered, vectorsymmetry, vectortrail, vertices, vibration, vibrationperiod, vibrationscale, vibx, vibxyz, viby, vibz, visible, visualrange, volume, w, waitformoveto, whilecmd, width, wigner, window, windowcentered, wireframe, wireframerotation, within, write, wyckoff, wyckoffm, x, xyz, y, z, zap, zdepth, zerobasedxyzrasmol, zoom, zoomenabled, zoomheight, zoomlarge, zoomTo, zshade, zshadepower, zslab -
Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionstatic booleanFor legacy reasons, "x" == "X" but see isLike()arrayToList(SV target) booleanfloatasFloat()intasInt()asString()static booleanstatic SVconcatList(SV x1, SV x2, boolean asNew) static SVcopySafely(SV v) Make a copy if this is a variable -- if it has myName != null.static ObjectCopies a hash or array deeply; invoked by Jmol script x = @a where a.type == "hash" or a.type == "varray"escape()static float[][]fflistValue(T x, int nMin) static float[]flistValue(T x, int nMin) static ObjectAccepts arguments from the format() function First argument is a format string.static floatstatic intgetArrayDepth(T x) static BSstatic SVgetBoolean(boolean value) static Objectstatic intgetFormatType(String format) String[]getKeys(boolean isAll) getList()getMap()getMapKeys(int nLevels, boolean skipEmpty) static SVstatic SVgetVariableAD(double[] f) static SVgetVariableList(Lst<?> v) static SVgetVariableMap(Map<String, ?> x) static booleana LIKE "x" a is a string and equals x a LIKE "*x" a is a string and ends with x a LIKE "x*" a is a string and starts with x a LIKE "*x*" a is a string and contains xbooleanisNaN()static booleanstatic booleanMust be updated if getVariable is updated!static intvoidstatic SVnewF(float f) static SVnewI(int i) static SVstatic SVstatic SVstatic Objectstatic P4static P3Script variables are pushed after cloning, because the name comes with them when we do otherwise they are not mutable anyway.static ObjectSafely create a JSON key - object pair, allowing for already-named arrayssortMapArray(String key) sortOrReverse(int arrayPt) static Objectstatic String[]strListValue(T x) static StringtoArray()toJSON()toString()static ObjectMethods inherited from class org.jmol.script.T
addToken, completeCommand, equals, getAtomPropertiesLike, getCommandSet, getParamType, getSettableTokFromString, getTokenFromName, getTokensLike, getTokensType, getTokFromName, hashCode, i, isIDcmd, n, nameOf, o, t, tokAttr, tokAttrOr, toString2, tv
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Field Details
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vT
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vF
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vNaN
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index
public int index -
myName
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FORMAT_JSON
public static final int FORMAT_JSON- See Also:
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FORMAT_BASE64
public static final int FORMAT_BASE64- See Also:
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FORMAT_BYTEARRAY
public static final int FORMAT_BYTEARRAY- See Also:
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FORMAT_ARRAY
public static final int FORMAT_ARRAY- See Also:
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FORMAT_STRING
public static final int FORMAT_STRING- See Also:
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FORMAT_XYZ
public static final int FORMAT_XYZ- See Also:
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FORMAT_ABC
public static final int FORMAT_ABC- See Also:
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FORMAT_UVW
public static final int FORMAT_UVW- See Also:
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FORMAT_RXYZ
public static final int FORMAT_RXYZ- See Also:
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Constructor Details
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SV
public SV()
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Method Details
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newV
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newI
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newF
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newS
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newT
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copySafely
Make a copy if this is a variable -- if it has myName != null.- Parameters:
v-- Returns:
- v or a copy of it
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isVariableType
Must be updated if getVariable is updated!- Parameters:
x-- Returns:
- if we recognize this as a variable
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getVariable
- Parameters:
x-- Returns:
- a ScriptVariable of the input type, or if x is null, then a new ScriptVariable, or, if the type is not found, a string version
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getVariableMap
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getVariableList
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getVariableAD
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setName
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asBoolean
public boolean asBoolean() -
asInt
public int asInt() -
asFloat
public float asFloat() -
asString
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oValue
- Parameters:
xx-- Returns:
- Object-wrapped value
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bValue
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iValue
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fValue
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sValue
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ptValue
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pt4Value
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concatList
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escape
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unescapePointOrBitsetAsVariable
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getBoolean
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sprintf
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getFormatType
- Parameters:
format-- Returns:
- 0: JSON, 5: base64, 12: bytearray, 22: array, 28:string, etc.
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format
Accepts arguments from the format() function First argument is a format string.- Parameters:
args-pt- 0: to JSON, 5: to base64, 12: to bytearray, 22: to array- Returns:
- formatted string
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getFormat
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getBitSet
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areEqual
For legacy reasons, "x" == "X" but see isLike()- Parameters:
x1-x2-- Returns:
- x1 == x2
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isLike
a LIKE "x" a is a string and equals x a LIKE "*x" a is a string and ends with x a LIKE "x*" a is a string and starts with x a LIKE "*x*" a is a string and contains x- Parameters:
x1-x2-- Returns:
- x1 LIKE x2
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sortOrReverse
- Parameters:
arrayPt- 1-based or Integer.MIN_VALUE to reverse- Returns:
- sorted or reversed array
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pushPop
Script variables are pushed after cloning, because the name comes with them when we do otherwise they are not mutable anyway. We do want to have actual references to points, lists, and associative arrays- Parameters:
mapKey-value- null to pop- Returns:
- array
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strListValue
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getArrayDepth
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fflistValue
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flistValue
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toArray
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arrayToList
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getList
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isScalar
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toJSON
- Specified by:
toJSONin interfaceJSONEncodable
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mapGet
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mapPut
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getMap
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getMapKeys
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toString
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getKeys
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deepCopy
Copies a hash or array deeply; invoked by Jmol script x = @a where a.type == "hash" or a.type == "varray"- Parameters:
v- hash or arrayisHash-isDeep- TODO- Returns:
- deeply copied variable
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sortMapArray
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safeJSON
Safely create a JSON key - object pair, allowing for already-named arrays- Parameters:
key-property-- Returns:
- JSON object
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isNaN
public boolean isNaN()
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