org.jmol.adapter.readers.xml
Class XmlArgusReader
java.lang.Object
org.jmol.adapter.smarter.AtomSetCollectionReader
org.jmol.adapter.readers.xml.XmlReader
org.jmol.adapter.readers.xml.XmlArgusReader
public class XmlArgusReader
- extends XmlReader
A crude ArgusLab .agl file Reader - http://www.planaria-software.com/
Use this reader as a template for adding new XML readers.
Fields inherited from class org.jmol.adapter.smarter.AtomSetCollectionReader |
ANGSTROMS_PER_BOHR, applySymmetryToBonds, atomSetCollection, bsFilter, bsModels, calculationType, doApplySymmetry, filter, getHeader, haveAtomFilter, havePartialChargeFilter, htParams, ignoreFileSymmetryOperators, ignoreFileUnitCell, iHaveSymmetryOperators, iHaveUnitCell, isTrajectory, latticeCells, line, modelNumber, needToApplySymmetry, next, prevline, reader, readerName, spaceGroup, templateAtomCount |
Method Summary |
(package private) int |
parseBondToken(java.lang.String str)
|
void |
processEndElement(java.lang.String uri,
java.lang.String localName,
java.lang.String qName)
|
void |
processStartElement(java.lang.String namespaceURI,
java.lang.String localName,
java.lang.String qName,
java.util.HashMap atts)
|
protected void |
processXml(XmlReader parent,
AtomSetCollection atomSetCollection,
java.io.BufferedReader reader,
netscape.javascript.JSObject DOMNode)
|
protected void |
processXml(XmlReader parent,
AtomSetCollection atomSetCollection,
java.io.BufferedReader reader,
org.xml.sax.XMLReader xmlReader)
|
Methods inherited from class org.jmol.adapter.smarter.AtomSetCollectionReader |
addJmolScript, addPrimitiveLatticeVector, addSites, applySymmetryAndSetTrajectory, checkLineForScript, checkLineForScript, clearLatticeParameters, deducePdbElementSymbol, discardLines, discardLinesUntilBlank, discardLinesUntilContains, discardLinesUntilNonBlank, discardLinesUntilStartsWith, doGetModel, fillDataBlock, filterAtom, filterAtom, getElementSymbol, getStrings, getTokens, getTokens, getTokens, getTokensFloat, isLastModel, newAtomSet, parseFloat, parseFloat, parseFloat, parseInt, parseInt, parseInt, parseInt, parseToken, parseToken, parseToken, parseTokenNext, parseTrimmed, parseTrimmed, readData, readData, readLine, readLineTrimmed, setAtomCoord, setAtomCoord, setError, setFractionalCoordinates, setMOData, setSpaceGroupName, setSymmetryOperator, setTransform, setUnitCell, setUnitCellItem |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
argusImplementedAttributes
java.lang.String[] argusImplementedAttributes
keepCharsList
java.lang.String[] keepCharsList
atomName1
java.lang.String atomName1
atomName2
java.lang.String atomName2
bondOrder
int bondOrder
elementContext
int elementContext
UNSET
static final int UNSET
- See Also:
- Constant Field Values
MOLECULE
static final int MOLECULE
- See Also:
- Constant Field Values
ATOM
static final int ATOM
- See Also:
- Constant Field Values
BOND
static final int BOND
- See Also:
- Constant Field Values
XmlArgusReader
XmlArgusReader()
processXml
protected void processXml(XmlReader parent,
AtomSetCollection atomSetCollection,
java.io.BufferedReader reader,
org.xml.sax.XMLReader xmlReader)
- Overrides:
processXml
in class XmlReader
processXml
protected void processXml(XmlReader parent,
AtomSetCollection atomSetCollection,
java.io.BufferedReader reader,
netscape.javascript.JSObject DOMNode)
- Overrides:
processXml
in class XmlReader
processStartElement
public void processStartElement(java.lang.String namespaceURI,
java.lang.String localName,
java.lang.String qName,
java.util.HashMap atts)
- Overrides:
processStartElement
in class XmlReader
parseBondToken
int parseBondToken(java.lang.String str)
processEndElement
public void processEndElement(java.lang.String uri,
java.lang.String localName,
java.lang.String qName)
- Overrides:
processEndElement
in class XmlReader