META-INF/MANIFEST.MF
META-INF/SELFSIGN.SF
META-INF/SELFSIGN.RSA
META-INF/
org/
org/jmol/
org/jmol/smiles/
org/jmol/smiles/InvalidSmilesException.class
<Unknown> package org.jmol.smiles public org.jmol.smiles.InvalidSmilesException extends java.lang.Exception { public void <init> () public void <init> (java.lang.String) public void <init> (java.lang.Throwable) public void <init> (java.lang.String, java.lang.Throwable) }
org/jmol/smiles/PatternMatcher.class
<Unknown> package org.jmol.smiles public org.jmol.smiles.PatternMatcher extends java.lang.Object implements org.jmol.api.SmilesMatcherInterface { private int atomCount private org.jmol.modelset.ModelSet modelSet public void <init> () public void setModelSet (org.jmol.modelset.ModelSet) public java.util.BitSet getSubstructureSet (java.lang.String) throws java.lang.Exception public java.util.BitSet getSubstructureSet (org.jmol.smiles.SmilesMolecule) private void searchMatch (java.util.BitSet, org.jmol.smiles.SmilesMolecule, int) private void searchMatch (java.util.BitSet, org.jmol.smiles.SmilesMolecule, org.jmol.smiles.SmilesAtom, int, int) }
org/jmol/smiles/SmilesAtom.class
<Unknown> package org.jmol.smiles public org.jmol.smiles.SmilesAtom extends java.lang.Object { private int number private String symbol private int atomicMass private int charge private int hydrogenCount private int matchingAtom private String chiralClass private int chiralOrder private org.jmol.smiles.SmilesBond[] bonds private int bondsCount private static final int INITIAL_BONDS public static final String DEFAULT_CHIRALITY public static final String CHIRALITY_ALLENE public static final String CHIRALITY_OCTAHEDRAL public static final String CHIRALITY_SQUARE_PLANAR public static final String CHIRALITY_TETRAHEDRAL public static final String CHIRALITY_TRIGONAL_BIPYRAMIDAL public void <init> (int) public void createMissingHydrogen (org.jmol.smiles.SmilesMolecule) public int getNumber () public java.lang.String getSymbol () public void setSymbol (java.lang.String) public int getAtomicMass () public void setAtomicMass (int) public int getCharge () public void setCharge (int) public int getMatchingAtom () public void setMatchingAtom (int) public java.lang.String getChiralClass () public void setChiralClass (java.lang.String) public int getChiralOrder () public void setChiralOrder (int) public int getHydrogenCount () public void setHydrogenCount (int) public int getBondsCount () public org.jmol.smiles.SmilesBond getBond (int) public void addBond (org.jmol.smiles.SmilesBond) }
org/jmol/smiles/SmilesBond.class
<Unknown> package org.jmol.smiles public org.jmol.smiles.SmilesBond extends java.lang.Object { public static final int TYPE_UNKOWN public static final int TYPE_NONE public static final int TYPE_SINGLE public static final int TYPE_DOUBLE public static final int TYPE_TRIPLE public static final int TYPE_AROMATIC public static final int TYPE_DIRECTIONAL_1 public static final int TYPE_DIRECTIONAL_2 public static final char CODE_NONE public static final char CODE_SINGLE public static final char CODE_DOUBLE public static final char CODE_TRIPLE public static final char CODE_AROMATIC public static final char CODE_DIRECTIONAL_1 public static final char CODE_DIRECTIONAL_2 private org.jmol.smiles.SmilesAtom atom1 private org.jmol.smiles.SmilesAtom atom2 private int bondType public void <init> (org.jmol.smiles.SmilesAtom, org.jmol.smiles.SmilesAtom, int) public static int getBondTypeFromCode (char) public org.jmol.smiles.SmilesAtom getAtom1 () public void setAtom1 (org.jmol.smiles.SmilesAtom) public org.jmol.smiles.SmilesAtom getAtom2 () public void setAtom2 (org.jmol.smiles.SmilesAtom) public int getBondType () public void setBondType (int) }
org/jmol/smiles/SmilesMolecule.class
<Unknown> package org.jmol.smiles public org.jmol.smiles.SmilesMolecule extends java.lang.Object { private org.jmol.smiles.SmilesAtom[] atoms private int atomsCount private org.jmol.smiles.SmilesBond[] bonds private int bondsCount private static final int INITIAL_ATOMS private static final int INITIAL_BONDS public void <init> () public org.jmol.smiles.SmilesAtom createAtom () public int getAtomsCount () public org.jmol.smiles.SmilesAtom getAtom (int) public org.jmol.smiles.SmilesBond createBond (org.jmol.smiles.SmilesAtom, org.jmol.smiles.SmilesAtom, int) public int getBondsCount () public org.jmol.smiles.SmilesBond getBond (int) }
org/jmol/smiles/SmilesParser.class
<Unknown> package org.jmol.smiles public org.jmol.smiles.SmilesParser extends java.lang.Object { private org.jmol.smiles.SmilesBond[] ringBonds public void <init> () public org.jmol.smiles.SmilesMolecule parseSmiles (java.lang.String) throws org.jmol.smiles.InvalidSmilesException private void parseSmiles (org.jmol.smiles.SmilesMolecule, java.lang.String, org.jmol.smiles.SmilesAtom) throws org.jmol.smiles.InvalidSmilesException private org.jmol.smiles.SmilesAtom parseAtom (org.jmol.smiles.SmilesMolecule, java.lang.String, org.jmol.smiles.SmilesAtom, int, boolean) throws org.jmol.smiles.InvalidSmilesException private void parseRing (org.jmol.smiles.SmilesMolecule, java.lang.String, org.jmol.smiles.SmilesAtom, int) throws org.jmol.smiles.InvalidSmilesException }