From: <eg...@us...> - 2006-07-14 11:07:49
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Revision: 6671 Author: egonw Date: 2006-07-14 04:07:00 -0700 (Fri, 14 Jul 2006) ViewCVS: http://svn.sourceforge.net/cdk/?rev=6671&view=rev Log Message: ----------- Last batch of JavaDoc fixes Modified Paths: -------------- trunk/cdk/src/org/openscience/cdk/fingerprint/Fingerprinter.java trunk/cdk/src/org/openscience/cdk/libio/biojava/Convertor.java trunk/cdk/src/org/openscience/cdk/qsar/AbstractBondDescriptor.java trunk/cdk/src/org/openscience/cdk/qsar/descriptors/bond/BondPartialTChargeDescriptor.java trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestChainDescriptor.java trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestPiSystemDescriptor.java trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LongestAliphaticChainDescriptor.java trunk/cdk/src/org/openscience/cdk/renderer/Renderer2DModel.java trunk/cdk/src/org/openscience/cdk/tools/FormatStringBuffer.java trunk/cdk/src/org/openscience/cdk/tools/GridGenerator.java trunk/cdk/src/org/openscience/cdk/tools/HydrogenAdder.java trunk/cdk/src/org/openscience/cdk/tools/LonePairElectronChecker.java trunk/cdk/src/org/openscience/cdk/tools/SaturationChecker.java trunk/cdk/src/org/openscience/cdk/tools/features/MoleculeFeaturesTool.java trunk/cdk/src/org/openscience/cdk/tools/manipulator/ReactionManipulator.java Modified: trunk/cdk/src/org/openscience/cdk/fingerprint/Fingerprinter.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/fingerprint/Fingerprinter.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/fingerprint/Fingerprinter.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -121,7 +121,6 @@ * @param size The desired size of the fingerprint * @param searchDepth The desired depth of search * @param ringFinder The AllRingsFinder to be used by the aromaticity detection - * @return The Fingerprint (A one-dimensional bit array) */ public Fingerprinter(int size, int searchDepth, AllRingsFinder ringFinder) { this.size = size; Modified: trunk/cdk/src/org/openscience/cdk/libio/biojava/Convertor.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/libio/biojava/Convertor.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/libio/biojava/Convertor.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -39,8 +39,8 @@ * convert CDK classes to <a href="http://www.biojava.org/">BioJava</a> * classes and visa versa. * - * @cdk.module libio-biojava - * @cdk.requires biojava-1.4.jar + * @cdk.module libio-biojava + * @cdk.builddepends biojava-1.4.jar * * @cdk.keyword BioJava * @cdk.keyword class convertor Modified: trunk/cdk/src/org/openscience/cdk/qsar/AbstractBondDescriptor.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/qsar/AbstractBondDescriptor.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/qsar/AbstractBondDescriptor.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -44,10 +44,10 @@ private Map cachedDescriptorValues = null; /** - * Returns the cached DescriptorValue for the given IAtom. + * Returns the cached DescriptorValue for the given IBond. * - * @param atom the IAtom for which the DescriptorValue is requested - * @return null, if no DescriptorValue was cached for the given IAtom + * @param bond the IAtom for which the DescriptorValue is requested + * @return null, if no DescriptorValue was cached for the given IBond */ public DescriptorValue getCachedDescriptorValue(IBond bond) { if (cachedDescriptorValues == null) return null; @@ -55,11 +55,11 @@ } /** - * Caches a DescriptorValue for a given IAtom. This method may only + * Caches a DescriptorValue for a given IBond. This method may only * be called after setNewContainer() is called. * - * @param atom IAtom to cache the value for - * @param value DescriptorValue for the given IAtom + * @param bond IBond to cache the value for + * @param value DescriptorValue for the given IBond */ public void cacheDescriptorValue(IBond bond, IAtomContainer container, DescriptorValue value) { if (cachedDescriptorValues == null) { Modified: trunk/cdk/src/org/openscience/cdk/qsar/descriptors/bond/BondPartialTChargeDescriptor.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/qsar/descriptors/bond/BondPartialTChargeDescriptor.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/qsar/descriptors/bond/BondPartialTChargeDescriptor.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -24,7 +24,6 @@ */ package org.openscience.cdk.qsar.descriptors.bond; -import org.openscience.cdk.Molecule; import org.openscience.cdk.exception.CDKException; import org.openscience.cdk.interfaces.IAtom; import org.openscience.cdk.interfaces.IAtomContainer; @@ -32,6 +31,7 @@ import org.openscience.cdk.qsar.DescriptorValue; import org.openscience.cdk.qsar.IMolecularDescriptor; import org.openscience.cdk.qsar.descriptors.atomic.PartialPiChargeDescriptor; +import org.openscience.cdk.qsar.descriptors.atomic.PartialSigmaChargeDescriptor; import org.openscience.cdk.qsar.descriptors.atomic.PartialTChargePEOEDescriptor; import org.openscience.cdk.qsar.result.DoubleResult; @@ -53,14 +53,13 @@ * </tr> * </table> * - * * @author Miguel Rojas * @cdk.created 2006-05-18 * @cdk.module qsar * @cdk.set qsar-descriptors * @cdk.dictref qsar-descriptors:bondPartialTCharge - * @see PartialPiChargeDescriptor - * @see PartialSigmaChargeDescriptor + * @see org.openscience.cdk.qsar.descriptors.atomic.PartialPiChargeDescriptor + * @see org.openscience.cdk.qsar.descriptors.atomic.PartialSigmaChargeDescriptor */ public class BondPartialTChargeDescriptor implements IMolecularDescriptor { Modified: trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestChainDescriptor.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestChainDescriptor.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestChainDescriptor.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -143,15 +143,17 @@ /** - * Calculate the count of atoms of the largest chain in the supplied {@link AtomContainer}. + * Calculate the count of atoms of the largest chain in the supplied {@link IAtomContainer}. * - * The method require two parameters: - * if checkAromaticity is true, the method check the aromaticity, - * if false, means that the aromaticity has already been checked + * <p>The method require two parameters: + * <ol> + * <li>if checkAromaticity is true, the method check the aromaticity, + * <li>if false, means that the aromaticity has already been checked + * </ol> * - * Same for checkRingSystem, if true the CDKConstant.ISINRING will be set + * <p>Same for checkRingSystem, if true the CDKConstant.ISINRING will be set * - *@param ac The {@link AtomContainer} for which this descriptor is to be calculated + *@param container The {@link AtomContainer} for which this descriptor is to be calculated *@return the number of atoms in the largest chain of this AtomContainer *@throws CDKException if there is a problem in aromaticity detection *@see #setParameters Modified: trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestPiSystemDescriptor.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestPiSystemDescriptor.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LargestPiSystemDescriptor.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -138,12 +138,13 @@ /** * Calculate the count of atoms of the largest pi system in the supplied {@link AtomContainer}. * - * The method require one parameter: - * if checkAromaticity is true, the method check the aromaticity, - * if false, means that the aromaticity has already been checked + * <p>The method require one parameter: + * <ol> + * <li>if checkAromaticity is true, the method check the aromaticity, + * <li>if false, means that the aromaticity has already been checked + * </ol> * - * - *@param ac The {@link AtomContainer} for which this descriptor is to be calculated + *@param container The {@link IAtomContainer} for which this descriptor is to be calculated *@return the number of atoms in the largest pi system of this AtomContainer *@throws CDKException if there is a problem in atomaticity detection *@see #setParameters Modified: trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LongestAliphaticChainDescriptor.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LongestAliphaticChainDescriptor.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/qsar/descriptors/molecular/LongestAliphaticChainDescriptor.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -137,10 +137,10 @@ /** * Calculate the count of atoms of the longest aliphatic chain in the supplied {@link AtomContainer}. * - * The method require two parameters: + * The method require one parameter: * if checkRingSyste is true the CDKConstant.ISINRING will be set * - *@param ac The {@link AtomContainer} for which this descriptor is to be calculated + *@param container The {@link AtomContainer} for which this descriptor is to be calculated *@return the number of atoms in the longest aliphatic chain of this AtomContainer *@throws CDKException if there is a problem in aromaticity detection *@see #setParameters Modified: trunk/cdk/src/org/openscience/cdk/renderer/Renderer2DModel.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/renderer/Renderer2DModel.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/renderer/Renderer2DModel.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -987,8 +987,6 @@ /** * Gets the color used for drawing the part which was selected externally - * - * @param externalHighlightColor The color */ public Color getExternalHighlightColor() { return externalHighlightColor; @@ -1005,8 +1003,6 @@ /** * Gets the color used for drawing the part we are hovering over. - * - * @param hoverOverColor The color */ public Color getHoverOverColor() { return hoverOverColor; @@ -1023,8 +1019,6 @@ /** * Gets the color used for drawing the internally selected part. - * - * @param selectedPartColor The color */ public Color getSelectedPartColor() { return selectedPartColor; Modified: trunk/cdk/src/org/openscience/cdk/tools/FormatStringBuffer.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/FormatStringBuffer.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/FormatStringBuffer.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -145,8 +145,6 @@ * Reset this <tt>FormatStringBuffer</tt> with the format string * given in the constructor or last call to <tt>reset(String)</tt>. * This is automatically called after <tt>toString()</tt>. - * - * @param format the format string. */ public FormatStringBuffer reset() { this.buffer = new StringBuffer(); Modified: trunk/cdk/src/org/openscience/cdk/tools/GridGenerator.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/GridGenerator.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/GridGenerator.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -31,11 +31,10 @@ import javax.vecmath.Point3d; /** - * Generates a grid within given boundaries + * Generates a grid of points in 3D space within given boundaries. * * @author cho * @cdk.created 2005-09-30 - * */ public class GridGenerator { @@ -54,19 +53,13 @@ public GridGenerator() { } - /** - * @param double min - * @param double max - */ public GridGenerator(double min, double max) { setDimension(min, max); generateGrid(); } /** - * @param double min - * @param double max - * @param double initialValue for the grid points + * @param initialValue used as initial value for the grid points */ public GridGenerator(double min, double max, double initialValue) { setDimension(min, max); @@ -74,12 +67,6 @@ initializeGrid(initialValue); } - // minx,maxx,miny,maxy,minz,maxz or flag - /** - * @param double[] minMax values - * @param double initialValue - * @param boolean cubicGridFlag - */ public GridGenerator(double[] minMax, double initialValue, boolean cubicGridFlag) { setDimension(minMax, cubicGridFlag); @@ -88,11 +75,7 @@ } /** - * Method sets the maximal 3d dimensions to given min and max values - * - * @param double min - * @param double max - * @return void + * Method sets the maximal 3d dimensions to given min and max values. */ public void setDimension(double min, double max) { this.minx = min; @@ -104,11 +87,7 @@ } /** - * Method sets the maximal 3d dimensions to given min and max values - * - * @param doublem min - * @param double max - * @return void + * Method sets the maximal 3d dimensions to given min and max values. */ public void setDimension(double[] minMax, boolean cubicGridFlag) { if (cubicGridFlag) { @@ -133,11 +112,7 @@ } /** - * Method sets the maximal 3d dimensions to given min and max values - * - * @param double min - * @param double max - * @return void + * Method sets the maximal 3d dimensions to given min and max values. */ public void setDimension(double minx, double maxx, double miny, double maxy, double minz, double maxz) { @@ -151,9 +126,8 @@ /** * Main method creates a grid between given boundaries (dimensions). - * The grid my be extended over the given boundaries with the variable extendGrid - * - * @return void + * The grid my be extended over the given boundaries with the + * variable extendGrid. */ public void generateGrid() { minx = minx - extendGrid; @@ -171,10 +145,7 @@ } /** - * Method initialise the given grid points with a value - * - * @param double value - * @return void + * Method initialise the given grid points with a value. */ public void initializeGrid(double value) { for (int i = 0; i < grid.length; i++) { @@ -187,12 +158,7 @@ } /** - * Method initialise the given grid points with a value - * - * @param double[][][] grid - * @param double value - * @return - * @return double[][][] + * Method initialise the given grid points with a value. */ public double[][][] initializeGrid(double grid[][][], double value) { for (int i = 0; i < grid.length; i++) { @@ -206,11 +172,7 @@ } /** - * Method transforms the grid to an array - * - * @param double[][][] grid - * @return - * @return double[] + * Method transforms the grid to an array. */ public double[] gridToGridArray(double[][][] grid) { if (grid == null) { @@ -230,10 +192,7 @@ } /** - * Method calculates coordiantes from a given grid point - * - * @param Point3d gridPoint - * @return Point3d coordinates + * Method calculates coordiantes from a given grid point. */ public Point3d getCoordinatesFromGridPoint(Point3d gridPoint) { double dx = minx + latticeConstant * gridPoint.x; @@ -243,11 +202,7 @@ } /** - * Method calculates coordiantes from a given grid array position - * - * @param int gridPoint - * @return - * @return Point3d coordinates + * Method calculates coordiantes from a given grid array position. */ public Point3d getCoordinatesFromGridPoint(int gridPoint) { int dimCounter = 0; @@ -269,11 +224,7 @@ } /** - * Method calculates the nearest grid point from given coordinates - * - * @param Point3d coord - * @throws Exception - * @return Point3d grid point + * Method calculates the nearest grid point from given coordinates. */ public Point3d getGridPointFrom3dCoordinates(Point3d coord) throws Exception { @@ -305,11 +256,7 @@ } /** - * Method transforms the grid into pmesh format - * - * @param String outPutFileName - * @throws IOException - * @return void + * Method transforms the grid into pmesh format. */ public void writeGridInPmeshFormat(String outPutFileName) throws IOException { @@ -332,15 +279,12 @@ } /** - * Method transforms the grid into pmesh format.Only grid points with specific value - * defined with cutoff are considered. + * Method transforms the grid into pmesh format. Only grid points + * with specific value defined with cutoff are considered. + * <pre> * cutoff <0, the values considered must be <=cutoff * cutoff >0, the values considered must be >=cutoff - * - * @param String outPutFileName - * @param double cutoff - * @throws IOException - * @return void + * </pre> */ public void writeGridInPmeshFormat(String outPutFileName, double cutOff) throws IOException { @@ -400,7 +344,7 @@ /** - * @return int[] Returns the dim. + * @return Returns the dim. */ public int[] getDim() { return dim; @@ -408,7 +352,7 @@ /** - * @param int[] dim The dim to set. + * @param dim The dim to set. */ public void setDim(int[] dim) { this.dim = dim; @@ -416,7 +360,7 @@ /** - * @return double Returns the extendGrid. + * @return Returns the extendGrid. */ public double getExtendGrid() { return extendGrid; @@ -424,7 +368,7 @@ /** - * @param double extendGrid The extendGrid to set. + * @param extendGrid The extendGrid to set. */ public void setExtendGrid(double extendGrid) { this.extendGrid = extendGrid; @@ -432,7 +376,7 @@ /** - * @return double[][][] Returns the grid. + * @return Returns the grid. */ public double[][][] getGrid() { return grid; @@ -440,7 +384,7 @@ /** - * @param double[][][] grid The grid to set. + * @param grid The grid to set. */ public void setGrid(double[][][] grid) { this.grid = grid; @@ -448,7 +392,7 @@ /** - * @return double Returns the latticeConstant. + * @return Returns the latticeConstant. */ public double getLatticeConstant() { return latticeConstant; @@ -456,7 +400,7 @@ /** - * @param double latticeConstant The latticeConstant to set. + * @param latticeConstant The latticeConstant to set. */ public void setLatticeConstant(double latticeConstant) { this.latticeConstant = latticeConstant; @@ -464,7 +408,7 @@ /** - * @return double[] Returns the gridArray. + * @return Returns the gridArray. */ public double[] getGridArray() { return gridArray; @@ -472,7 +416,7 @@ /** - * @return double Returns the maxx. + * @return Returns the maxx. */ public double getMaxx() { return maxx; @@ -480,7 +424,7 @@ /** - * @return double Returns the maxy. + * @return Returns the maxy. */ public double getMaxy() { return maxy; @@ -488,7 +432,7 @@ /** - * @return double Returns the maxz. + * @return Returns the maxz. */ public double getMaxz() { return maxz; @@ -496,7 +440,7 @@ /** - * @return double Returns the minx. + * @return Returns the minx. */ public double getMinx() { return minx; @@ -504,7 +448,7 @@ /** - * @return double Returns the miny. + * @return Returns the miny. */ public double getMiny() { return miny; @@ -512,7 +456,7 @@ /** - * @return double Returns the minz. + * @return Returns the minz. */ public double getMinz() { return minz; Modified: trunk/cdk/src/org/openscience/cdk/tools/HydrogenAdder.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/HydrogenAdder.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/HydrogenAdder.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -141,7 +141,6 @@ * org.openscience.cdk.HydrogenPlacer(atomContainer, bondLength); * * @param molecule Molecule to saturate - * @return * @cdk.keyword hydrogen, adding * @cdk.keyword explicit hydrogen */ @@ -163,7 +162,6 @@ * org.openscience.cdk.HydrogenPlacer(atomContainer, bondLength); * * @param molecule Molecule to saturate - * @return * @cdk.keyword hydrogen, adding * @cdk.keyword explicit hydrogen */ @@ -199,7 +197,6 @@ * @param atom Atom to saturate * @param container AtomContainer containing the atom * @param totalContainer In case you have a container containing multiple structures, this is the total container, whereas container is a partial structure - * @return * * @cdk.keyword hydrogen, adding * @cdk.keyword explicit hydrogen @@ -227,7 +224,6 @@ * @param atom Atom to saturate * @param container AtomContainer containing the atom * @param totalContainer In case you have a container containing multiple structures, this is the total container, whereas container is a partial structure - * @return * * @cdk.keyword hydrogen, adding * @cdk.keyword explicit hydrogen @@ -252,7 +248,6 @@ * @param container AtomContainer containing the atom * @param count Number of hydrogens to add * @param totalContainer In case you have a container containing multiple structures, this is the total container, whereas container is a partial structure - * @return * * @cdk.keyword hydrogen, adding * @cdk.keyword explicit hydrogen @@ -278,10 +273,9 @@ } /** - * Method that saturates a molecule by adding implicit hydrogens. + * Method that saturates a molecule by adding implicit hydrogens. * *@param container Molecule to saturate - * @return *@cdk.keyword hydrogen, adding *@cdk.keyword implicit hydrogen */ @@ -305,7 +299,6 @@ * * @param container Molecule to saturate * @param atom Atom to satureate. - * @return * @cdk.keyword hydrogen, adding * @cdk.keyword implicit hydrogen */ Modified: trunk/cdk/src/org/openscience/cdk/tools/LonePairElectronChecker.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/LonePairElectronChecker.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/LonePairElectronChecker.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -69,21 +69,13 @@ } /** * Determines of all atoms on the AtomContainer have specified the right number the lone pair electrons. - * - * @param container - * @return - * - * @throws CDKException */ public boolean isSaturated(IAtomContainer container) throws CDKException { return allSaturated(container); } + /** * Determines of all atoms on the AtomContainer have specified the right number the lone pair electrons. - * - * @param ac - * @return - * @throws CDKException */ public boolean allSaturated(IAtomContainer ac) throws CDKException { @@ -99,12 +91,7 @@ /** * Checks wether an Atom is saturated their lone pair electrons by comparing it with known AtomTypes. - * @param atom The atom - * @param ac The atomcontainer - * * @return True, if it's right satured - * - * @throws CDKException */ public boolean isSaturated(IAtom atom, IAtomContainer ac) throws CDKException { @@ -135,9 +122,6 @@ } /** * Saturates a molecule by setting appropriate number lone pair electrons. - * - * @param atomContainer - * @throws CDKException */ public void newSaturate(IAtomContainer atomContainer) throws CDKException { logger.info("Saturating atomContainer by adjusting lone pair electrons..."); @@ -151,9 +135,6 @@ } /** * Saturates a atom by setting appropriate number lone pair electrons. - * - * @param atomContainer - * @throws CDKException */ public void newSaturate(IAtom atom, IAtomContainer ac) throws CDKException { logger.info("Saturating atom by adjusting lone pair electrons..."); Modified: trunk/cdk/src/org/openscience/cdk/tools/SaturationChecker.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/SaturationChecker.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/SaturationChecker.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -61,6 +61,7 @@ * @cdk.keyword atom, valency * * @cdk.module valencycheck + * @cdk.bug 1167386 */ public class SaturationChecker implements IValencyChecker { @@ -290,7 +291,6 @@ * * @cdk.keyword bond order, calculation * @cdk.created 2003-10-03 - * @cdk.bug 1167386 */ public void newSaturate(IAtomContainer atomContainer) throws CDKException { logger.info("Saturating atomContainer by adjusting bond orders..."); Modified: trunk/cdk/src/org/openscience/cdk/tools/features/MoleculeFeaturesTool.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/features/MoleculeFeaturesTool.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/features/MoleculeFeaturesTool.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -69,9 +69,6 @@ /** * Checks wether all bonds have exactly two atoms. - * - * @param molecule - * @return */ public static boolean hasGraphRepresentation(IMolecule molecule) { IBond[] bonds = molecule.getBonds(); Modified: trunk/cdk/src/org/openscience/cdk/tools/manipulator/ReactionManipulator.java =================================================================== --- trunk/cdk/src/org/openscience/cdk/tools/manipulator/ReactionManipulator.java 2006-07-14 10:41:57 UTC (rev 6670) +++ trunk/cdk/src/org/openscience/cdk/tools/manipulator/ReactionManipulator.java 2006-07-14 11:07:00 UTC (rev 6671) @@ -241,7 +241,7 @@ * get the IAtom which is mapped * * @param reaction The IReaction which contains the mapping - * @param atom The IChemObject which will be searched its mapped IChemObject + * @param chemObject The IChemObject which will be searched its mapped IChemObject * @return The mapped IChemObject */ public static IChemObject getMappedChemObject(IReaction reaction, IChemObject chemObject){ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |