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github.com/BobHanson/Jmol-SwingJS
/ functions
Functions
24,809 in github.com/BobHanson/Jmol-SwingJS
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Functions
24,809
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Types & classes
1,819
↓ 25 callers
Method
parseIntAt
(String s, int iStart)
src/org/jmol/adapter/smarter/AtomSetCollectionReader.java:2009
↓ 25 callers
Method
rotate2
Transform the vector vec using this Matrix3f and place the result into vecOut. @param t the single precision vector to be transformed @param r
src/javajs/util/M34d.java:114
↓ 25 callers
Method
startElement
(String uri, String localName, String qName, Attributes attributes)
src/fr/orsay/lri/varna/utils/RNAMLParser.java:211
↓ 25 callers
Method
toString
()
src/org/jmol/util/Font.java:194
↓ 25 callers
Method
toString
()
src/fr/orsay/lri/varna/models/rna/RNA.java:4165
↓ 24 callers
Method
addItem
(String category, String key, String val)
src/fr/orsay/lri/varna/utils/BasicINI.java:21
↓ 24 callers
Method
addOp
addOp The primary driver of the Reverse Polish Notation evaluation engine. This method loads operators onto the oStack[] and processes them based on
src/org/jmol/script/ScriptMathProcessor.java:401
↓ 24 callers
Method
finalizeReaderASCR
()
src/org/jmol/adapter/smarter/AtomSetCollectionReader.java:459
↓ 24 callers
Method
getAllAtoms
()
src/org/jmol/viewer/Viewer.java:3943
↓ 24 callers
Method
getArgb
(short colix)
src/org/jmol/util/C.java:350
↓ 24 callers
Method
getArgument
(int i)
src/fr/orsay/lri/varna/controlers/ControleurScriptParser.java:128
↓ 24 callers
Method
getAtom
Get the respective atom, 0 or 1 @param i @return SimpleNode
src/org/jmol/util/SimpleEdge.java:30
↓ 24 callers
Method
getColumnModel
()
src/org/jmol/awtjs/swing/JTable.java:29
↓ 24 callers
Method
getComponent
(int i)
src/org/jmol/api/SC.java:23
↓ 24 callers
Method
getFilter
(String key)
src/org/jmol/adapter/smarter/AtomSetCollectionReader.java:1369
↓ 24 callers
Method
getXYZ
()
src/org/jmol/util/Node.java:100
↓ 24 callers
Method
get_drawMode
()
src/fr/orsay/lri/varna/models/rna/RNA.java:2071
↓ 24 callers
Method
is1D
()
src/jspecview/source/JDXDataObject.java:308
↓ 24 callers
Method
isAB
(Object x)
src/javajs/util/AU.java:592
↓ 24 callers
Method
isClosed
()
src/jspecview/common/JSViewer.java:706
↓ 24 callers
Method
logInfo
(String msg)
src/org/jmol/symmetry/CIPChirality.java:2935
↓ 24 callers
Function
mm
()
assets/inchi/inchi.js:83
↓ 24 callers
Method
newVA
(T3d v, double theta)
src/javajs/util/Qd.java:68
↓ 24 callers
Method
notifyEnabled
(CBK type)
src/org/jmol/viewer/StatusManager.java:300
↓ 24 callers
Method
parseIntNext
(String str, int[] next)
src/javajs/util/PT.java:51
↓ 24 callers
Method
read
(char[] buf, int off, int len)
src/javajs/util/ListDataReader.java:34
↓ 24 callers
Method
setInfo
(int modelIndex, Object key, Object value)
src/org/jmol/modelset/ModelSet.java:1698
↓ 24 callers
Method
setItemEnabled
(String key, boolean TF)
src/jspecview/popup/JSVGenericPopup.java:314
↓ 24 callers
Method
setShapePropertyBs
(int shapeID, String propertyName, Object value, BS bsSelected)
src/org/jmol/viewer/ShapeManager.java:216
↓ 24 callers
Method
setShapeVisibility
(int flag, boolean isVisible)
src/org/jmol/modelset/Atom.java:158
↓ 24 callers
Method
setUnitCellItem
(int i, double x)
src/org/jmol/adapter/smarter/AtomSetCollectionReader.java:990
↓ 24 callers
Method
showString
(String str)
src/org/jmol/script/ScriptEval.java:2001
↓ 24 callers
Method
toString
()
src/fr/orsay/lri/varna/models/templates/RNATemplate.java:1523
↓ 23 callers
Function
F
(a,b)
doc/varna/VARNA_menu_files/ga.js:1
↓ 23 callers
Method
addBond
(CDBond b)
src/org/jmol/adapter/readers/xml/CDXMLParser.java:1138
↓ 23 callers
Method
addItemListener
(Object owner)
src/org/jmol/api/SC.java:17
↓ 23 callers
Method
addMouseListener
(Object owner)
src/org/jmol/api/SC.java:19
↓ 23 callers
Method
addTriangleCheck
addTriangleCheck adds a triangle along with a 3-bit check indicating which edges to draw in mesh mode: 1 (iA-iB) + 2 (iB-iC) + 4 (iC-iA) @param iA @p
src/org/jmol/jvxl/api/VertexDataServer.java:105
↓ 23 callers
Method
computeTorsion
(T3d p1, T3d p2, T3d p3, T3d p4, boolean asDegrees)
src/javajs/util/MeasureD.java:51
↓ 23 callers
Method
eP4
(P4d x)
src/org/jmol/util/Escape.java:86
↓ 23 callers
Method
formatString
generic string formatter based on formatLabel in Atom @param strFormat .... %width.precisionKEY.... @param key any string to match @param st
src/javajs/util/PT.java:962
↓ 23 callers
Method
getArgbFromString
accepts [xRRGGBB] or [0xRRGGBB] or [0xFFRRGGBB] or #RRGGBB or [red,green,blue] or a valid JavaScript color @param strColor @return 0 if invalid or in
src/javajs/util/CU.java:391
↓ 23 callers
Method
getAtomFromName
(String atomLabel)
src/org/jmol/adapter/readers/cif/TopoCifParser.java:1578
↓ 23 callers
Method
getAtomSetAtomCount
(int i)
src/org/jmol/adapter/smarter/AtomSetCollection.java:896
↓ 23 callers
Method
getBitSet
(SV x, boolean allowNull)
src/org/jmol/script/SV.java:1462
↓ 23 callers
Method
getBondCount
Get the total number of bonds, including hydrogen bonds. @return number of bonds
src/org/jmol/util/SimpleNode.java:22
↓ 23 callers
Method
getBoolName
(int g)
src/org/jmol/viewer/JC.java:1643
↓ 23 callers
Method
getChildren
Returns the list of children. The return list has a O(1) access time to any of its elements (ie. it is like an array and unlike a linked list)
src/fr/orsay/lri/varna/models/treealign/Tree.java:31
↓ 23 callers
Method
getMSInfoB
(String keyName)
src/org/jmol/modelset/ModelSet.java:1579
↓ 23 callers
Method
getNode
In case of a single node, return it. Will throw RNANodeValue2WrongTypeException if singleNode = false.
src/fr/orsay/lri/varna/models/treealign/RNANodeValue2.java:51
↓ 23 callers
Method
getScreenHeight
()
src/org/jmol/viewer/Viewer.java:813
↓ 23 callers
Method
invert
Sets the value of this matrix to its inverse.
src/javajs/util/M3d.java:456
↓ 23 callers
Method
menuRemoveAll
(SC menu, int indexFrom)
src/org/jmol/popup/GenericPopup.java:357
↓ 23 callers
Method
setCursor
(int i, Object display)
src/org/jmol/api/GenericPlatform.java:40
↓ 23 callers
Method
setVisible
(boolean visible)
src/jspecview/api/PlatformDialog.java:46
↓ 23 callers
Method
tv
(int tok, int intValue, Object value)
src/org/jmol/script/T.java:62
↓ 23 callers
Method
uP
(String strPoint)
src/org/jmol/util/Escape.java:385
↓ 22 callers
Function
Kj
(b,f,g,h,i)
assets/inchi/inchi.js:78
↓ 22 callers
Method
applySymmetryAndSetTrajectory
()
src/org/jmol/adapter/readers/xtal/GulpReader.java:303
↓ 22 callers
Method
fireJmolScriptCallback
@param isEnabled @param callback @param o the arguments to pass @param doWait generally TRUE, but FALSE for AnimFrameCallback, as otherwise
src/org/jmol/viewer/StatusManager.java:317
↓ 22 callers
Method
formatStringS
(String strFormat, String key, String strT)
src/javajs/util/PT.java:1048
↓ 22 callers
Method
getArray
Access the internal two-dimensional array. @return Pointer to the two-dimensional array of matrix elements.
src/javajs/util/Matrix.java:64
↓ 22 callers
Method
getAtomSetAtomIndex
(int i)
src/org/jmol/adapter/smarter/AtomSetCollection.java:892
↓ 22 callers
Method
getAtomSetAuxiliaryInfoValue
(int index, String key)
src/org/jmol/adapter/smarter/AtomSetCollection.java:1028
↓ 22 callers
Method
getCenter
(int i)
src/fr/orsay/lri/varna/models/rna/RNA.java:1205
↓ 22 callers
Method
getCoords
()
src/fr/orsay/lri/varna/models/rna/ModeleBase.java:233
↓ 22 callers
Method
getDialog
(AType type, int iSpec)
src/jspecview/common/GraphSet.java:4187
↓ 22 callers
Method
getElementSymbol
()
src/org/jmol/modelset/Atom.java:357
↓ 22 callers
Method
getFont3D
(int fontID)
src/org/jmol/util/Font.java:100
↓ 22 callers
Method
getInfo
(int modelIndex, String key)
src/org/jmol/modelset/ModelSet.java:1707
↓ 22 callers
Method
getJmolScriptCallback
(CBK callback)
src/org/jmol/viewer/StatusManager.java:306
↓ 22 callers
Method
getResidueNumber
()
src/fr/orsay/lri/varna/models/rna/ModeleBase.java:217
↓ 22 callers
Method
getSymmetry
()
src/org/jmol/api/JmolAdapterAtomIterator.java:41
↓ 22 callers
Method
getText
(String key)
src/org/jmol/modelkit/ModelKit.java:744
↓ 22 callers
Method
includes
(int mouseAction, int mod)
src/org/jmol/viewer/binding/Binding.java:363
↓ 22 callers
Method
init
(String text, Object icon, String actionCommand, SC popupMenu)
src/org/jmol/api/SC.java:39
↓ 22 callers
Method
isColixTranslucent
(short colix)
src/org/jmol/util/C.java:384
↓ 22 callers
Method
mput
(Map<String, Object> m, String key, Object val)
src/org/jmol/adapter/readers/xtal/FSGOutputReader.java:572
↓ 22 callers
Method
newI
(int i)
src/org/jmol/script/SV.java:82
↓ 22 callers
Method
nextElement
normal iterator method @return Tuple
src/org/jmol/bspt/CubeIterator.java:116
↓ 22 callers
Method
plotPixelClippedArgb
(int argb, int x, int y, int z, int width, int[] zbuf, Pixelator p)
src/org/jmol/g3d/Graphics3D.java:1652
↓ 22 callers
Method
popContext
(boolean isFlowCommand, boolean statementOnly)
src/org/jmol/script/ScriptEval.java:1645
↓ 22 callers
Method
postAddCmd
(SB sb, String cmd)
src/org/gennbo/NBOUtil.java:68
↓ 22 callers
Method
setAA
(A4d a)
src/javajs/util/Qd.java:168
↓ 22 callers
Method
setCommand
(T token)
src/org/jmol/script/ScriptCompiler.java:1007
↓ 22 callers
Method
setDoTranslate
@param TF @return initial setting of GT.doTranslate
src/org/jmol/i18n/GT.java:195
↓ 22 callers
Method
setStream
(BufferedInputStream bis, boolean isBigEndian)
src/javajs/api/GenericBinaryDocument.java:13
↓ 22 callers
Method
toPixelY
(double yVal)
src/jspecview/common/GraphSet.java:560
↓ 22 callers
Method
transformPtScr
RENDERERS ONLY @param ptXYZ @param pointScreen
src/org/jmol/viewer/TransformManager.java:1544
↓ 22 callers
Method
truncate2
(SB sb, double val)
src/org/jmol/viewer/TransformManager.java:2138
↓ 21 callers
Function
F
(a,b)
doc/varna/VARNA_features_files/ga.js:1
↓ 21 callers
Function
F
(a,b)
doc/varna/VARNA_mouse_files/ga.js:1
↓ 21 callers
Function
F
(a,b)
doc/varna/VARNA_specs_files/ga.js:1
↓ 21 callers
Function
assert
(a,b)
assets/inchi/inchi.js:12
↓ 21 callers
Method
distanceToPlane
(P4d plane, T3d pt)
src/javajs/util/MeasureD.java:185
↓ 21 callers
Method
doGetVibration
(int vibrationNumber)
src/org/jmol/adapter/smarter/AtomSetCollectionReader.java:1473
↓ 21 callers
Method
elementSymbolFromNumber
@param elemNo may be atomicNumber + isotopeNumber 128 @return elementSymbol
src/org/jmol/util/Elements.java:271
↓ 21 callers
Method
fieldProperty
(int col)
src/org/jmol/adapter/readers/cif/CifReader.java:1571
↓ 21 callers
Method
fill
(GeneralPath s)
src/fr/orsay/lri/varna/models/export/VueVARNAGraphics.java:25
↓ 21 callers
Method
getColixInherited
(short myColix, short parentColix)
src/org/jmol/util/C.java:365
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