META-INF/
META-INF/MANIFEST.MF
org/
org/jmol/
org/jmol/adapter/
org/jmol/adapter/readers/
org/jmol/adapter/readers/xml/
org/jmol/adapter/readers/xml/XmlArgusReader$ArgusHandler.class
<Unknown> package org.jmol.adapter.readers.xml org.jmol.adapter.readers.xml.XmlArgusReader$ArgusHandler extends org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler { private final org.jmol.adapter.readers.xml.XmlArgusReader this$0 void <init> (org.jmol.adapter.readers.xml.XmlArgusReader) void <init> (org.jmol.adapter.readers.xml.XmlArgusReader, org.xml.sax.XMLReader) }
org/jmol/adapter/readers/xml/XmlArgusReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlArgusReader extends org.jmol.adapter.readers.xml.XmlReader { String[] argusImplementedAttributes String[] keepCharsList String atomName1 String atomName2 int bondOrder int elementContext static final int UNSET static final int MOLECULE static final int ATOM static final int BOND void <init> () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) public void processStartElement (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) int parseBondToken (java.lang.String) public void processEndElement (java.lang.String, java.lang.String, java.lang.String) }
org/jmol/adapter/readers/xml/XmlChem3dReader$Chem3dHandler.class
<Unknown> package org.jmol.adapter.readers.xml org.jmol.adapter.readers.xml.XmlChem3dReader$Chem3dHandler extends org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler { private final org.jmol.adapter.readers.xml.XmlChem3dReader this$0 void <init> (org.jmol.adapter.readers.xml.XmlChem3dReader) void <init> (org.jmol.adapter.readers.xml.XmlChem3dReader, org.xml.sax.XMLReader) }
org/jmol/adapter/readers/xml/XmlChem3dReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlChem3dReader extends org.jmol.adapter.readers.xml.XmlReader { String[] chem3dImplementedAttributes void <init> () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) public void processStartElement (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) public void processEndElement (java.lang.String, java.lang.String, java.lang.String) }
org/jmol/adapter/readers/xml/XmlCmlReader$CmlHandler.class
<Unknown> package org.jmol.adapter.readers.xml org.jmol.adapter.readers.xml.XmlCmlReader$CmlHandler extends org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler { private final org.jmol.adapter.readers.xml.XmlCmlReader this$0 void <init> (org.jmol.adapter.readers.xml.XmlCmlReader) void <init> (org.jmol.adapter.readers.xml.XmlCmlReader, org.xml.sax.XMLReader) }
org/jmol/adapter/readers/xml/XmlCmlReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlCmlReader extends org.jmol.adapter.readers.xml.XmlReader { private String[] cmlImplementedAttributes private int atomCount private org.jmol.adapter.smarter.Atom[] atomArray private int bondCount private org.jmol.adapter.smarter.Bond[] bondArray private int tokenCount String[] tokens private int nModules private int moduleNestingLevel private boolean haveMolecule private String localSpaceGroupName private boolean processing protected final int START protected final int CML protected final int CRYSTAL protected final int CRYSTAL_SCALAR protected final int CRYSTAL_SYMMETRY protected final int CRYSTAL_SYMMETRY_TRANSFORM3 protected final int MOLECULE protected final int MOLECULE_ATOM_ARRAY protected final int MOLECULE_ATOM protected final int MOLECULE_ATOM_SCALAR protected final int MOLECULE_BOND_ARRAY protected final int MOLECULE_BOND protected final int MOLECULE_FORMULA protected final int MOLECULE_ATOM_BUILTIN protected final int MOLECULE_BOND_BUILTIN protected final int MODULE protected final int SYMMETRY protected final int LATTICE_VECTOR protected int state private String scalarDictRef private String scalarDictValue private String scalarTitle private String cellParameterType private int moleculeNesting private int latticeVectorPtr private boolean embeddedCrystal private java.util.Properties atomIdNames void <init> () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) public void processStartElement (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) private void getDictRefValue (java.util.HashMap) public void processEndElement (java.lang.String, java.lang.String, java.lang.String) int parseBondToken (java.lang.String) void breakOutTokens (java.lang.String) void breakOutAtomTokens (java.lang.String) void checkAtomArrayLength (int) void breakOutBondTokens (java.lang.String) void checkBondArrayLength (int) private void createNewAtomSet (java.util.HashMap) public void applySymmetryAndSetTrajectory () }
org/jmol/adapter/readers/xml/XmlMolproReader$MolproHandler.class
<Unknown> package org.jmol.adapter.readers.xml org.jmol.adapter.readers.xml.XmlMolproReader$MolproHandler extends org.jmol.adapter.readers.xml.XmlCmlReader$CmlHandler { private final org.jmol.adapter.readers.xml.XmlMolproReader this$0 void <init> (org.jmol.adapter.readers.xml.XmlMolproReader) void <init> (org.jmol.adapter.readers.xml.XmlMolproReader, org.xml.sax.XMLReader) public void startElement (java.lang.String, java.lang.String, java.lang.String, org.xml.sax.Attributes) public void endElement (java.lang.String, java.lang.String, java.lang.String) }
org/jmol/adapter/readers/xml/XmlMolproReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlMolproReader extends org.jmol.adapter.readers.xml.XmlCmlReader { static String[] molProImplementedAttributes int frequencyCount void <init> () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) public void processStartElement2 (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) public void processEndElement2 (java.lang.String, java.lang.String, java.lang.String) static void <clinit> () }
org/jmol/adapter/readers/xml/XmlOdysseyReader$OdysseyHandler.class
<Unknown> package org.jmol.adapter.readers.xml org.jmol.adapter.readers.xml.XmlOdysseyReader$OdysseyHandler extends org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler { private final org.jmol.adapter.readers.xml.XmlOdysseyReader this$0 void <init> (org.jmol.adapter.readers.xml.XmlOdysseyReader) void <init> (org.jmol.adapter.readers.xml.XmlOdysseyReader, org.xml.sax.XMLReader) }
org/jmol/adapter/readers/xml/XmlOdysseyReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlOdysseyReader extends org.jmol.adapter.readers.xml.XmlReader { String[] odysseyImplementedAttributes String modelName String formula String phase void <init> () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) protected void processStartElement (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) public void applySymmetryAndSetTrajectory () int parseBondToken (java.lang.String) protected void processEndElement (java.lang.String, java.lang.String, java.lang.String) }
org/jmol/adapter/readers/xml/XmlReader$DummyResolver.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlReader$DummyResolver extends java.lang.Object implements org.xml.sax.EntityResolver { public void <init> () public org.xml.sax.InputSource resolveEntity (java.lang.String, java.lang.String) throws org.xml.sax.SAXException }
org/jmol/adapter/readers/xml/XmlReader$JmolXmlHandler.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler extends org.xml.sax.helpers.DefaultHandler implements org.xml.sax.ErrorHandler { public java.util.HashMap atts private final org.jmol.adapter.readers.xml.XmlReader this$0 public void <init> (org.jmol.adapter.readers.xml.XmlReader) public void <init> (org.jmol.adapter.readers.xml.XmlReader, org.xml.sax.XMLReader) public void setHandler (org.xml.sax.XMLReader, org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler) public void startDocument () public void endDocument () public void startElement (java.lang.String, java.lang.String, java.lang.String, org.xml.sax.Attributes) private void startElement (java.lang.String, java.lang.String, java.lang.String) public void endElement (java.lang.String, java.lang.String, java.lang.String) public void characters (char[], int, int) public org.xml.sax.InputSource resolveEntity (java.lang.String, java.lang.String, java.lang.String, java.lang.String) public org.xml.sax.InputSource resolveEntity (java.lang.String, java.lang.String) public void error (org.xml.sax.SAXParseException) public void fatalError (org.xml.sax.SAXParseException) public void warning (org.xml.sax.SAXParseException) protected void walkDOMTree (netscape.javascript.JSObject) private void getAttributes (org.xml.sax.Attributes) private void getAttributes (netscape.javascript.JSObject) }
org/jmol/adapter/readers/xml/XmlReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlReader extends org.jmol.adapter.smarter.AtomSetCollectionReader { protected org.jmol.adapter.readers.xml.XmlReader parent protected org.jmol.adapter.smarter.Atom atom String[] implementedAttributes protected boolean keepChars protected String chars public void <init> () public void readAtomSetCollection (java.io.BufferedReader) private org.xml.sax.XMLReader getXMLReader () private org.xml.sax.XMLReader allocateXmlReader14 () private org.xml.sax.XMLReader allocateXmlReaderAelfred2 () private java.lang.Object processXml (org.xml.sax.XMLReader) throws java.lang.Exception private java.lang.Object getXmlReader () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void parseReaderXML (org.xml.sax.XMLReader) public void readAtomSetCollectionFromDOM (java.lang.Object) private java.lang.Object processXml (netscape.javascript.JSObject) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) protected void processStartElement (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) protected void setKeepChars (boolean) protected void processEndElement (java.lang.String, java.lang.String, java.lang.String) }
org/jmol/adapter/readers/xml/XmlXsdReader$XsdHandler.class
<Unknown> package org.jmol.adapter.readers.xml org.jmol.adapter.readers.xml.XmlXsdReader$XsdHandler extends org.jmol.adapter.readers.xml.XmlReader$JmolXmlHandler { private final org.jmol.adapter.readers.xml.XmlXsdReader this$0 void <init> (org.jmol.adapter.readers.xml.XmlXsdReader) void <init> (org.jmol.adapter.readers.xml.XmlXsdReader, org.xml.sax.XMLReader) }
org/jmol/adapter/readers/xml/XmlXsdReader.class
<Unknown> package org.jmol.adapter.readers.xml public org.jmol.adapter.readers.xml.XmlXsdReader extends org.jmol.adapter.readers.xml.XmlReader { String[] xsdImplementedAttributes private java.util.BitSet bsBackbone private int iChain private int iGroup private int iAtom public void <init> () protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, org.xml.sax.XMLReader) protected void processXml (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection, java.io.BufferedReader, netscape.javascript.JSObject) private void init (org.jmol.adapter.readers.xml.XmlReader, org.jmol.adapter.smarter.AtomSetCollection) private void fin () public void processStartElement (java.lang.String, java.lang.String, java.lang.String, java.util.HashMap) public void processEndElement (java.lang.String, java.lang.String, java.lang.String) }