|
Deprecated Methods |
chemaxon.struc.RxnMolecule.addStructure(Molecule, int)
as of Marvin 4.1, replaced by
RxnMolecule.addComponent(Molecule, int) |
chemaxon.struc.RxnMolecule.addStructure(Molecule, int, boolean)
as of Marvin 4.1, replaced by
RxnMolecule.addComponent(Molecule, int, boolean) |
chemaxon.formats.MFileFormatUtil.canBe1LetterPeptide(String)
as of Marvin 5.0,
PeptideRecognizer.canBe1LetterPeptide(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBe3LetterPeptide(String)
as of Marvin 5.0,
PeptideRecognizer.canBe3LetterPeptide(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBeAbbrevgroup(String)
as of Marvin 5.0,
AbbrevGroupRecognizer.testLine(String)
must be used instead |
chemaxon.formats.MolInputStream.canBeAbbrevgroup(String)
as of Marvin 5.0,
AbbrevGroupRecognizer.testLine(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBeBase64(String)
as of Marvin 5.0,
Base64Recognizer.canBeBase64(String)
must be used instead |
chemaxon.formats.MolInputStream.canBeBase64(String)
as of Marvin 5.0,
Base64Recognizer.canBeBase64(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBeChime(String)
as of Marvin 5.0,
ChimeRecognizer.canBeChime(String)
must be used instead |
chemaxon.formats.MolInputStream.canBeChime(String)
as of Marvin 5.0,
ChimeRecognizer.canBeChime(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBeJTF(String)
as of Marvin 5.0,
JTFRecognizer.canBeJTFHeader(String)
must be used instead |
chemaxon.formats.MolInputStream.canBeJTF(String)
as of Marvin 5.0,
JTFRecognizer.canBeJTFHeader(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBePDBRecord(String)
as of Marvin 5.0,
PDBRecognizer.testRecord(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBeSMARTS(String)
as of Marvin 5.0,
SMILESRecognizer.canBeSMARTS(String)
must be used instead |
chemaxon.formats.MolInputStream.canBeSMARTS(String)
as of Marvin 5.0,
SMILESRecognizer.canBeSMARTS(String)
must be used instead |
chemaxon.formats.MFileFormatUtil.canBeSMILES(String)
as of Marvin 5.0,
SMILESRecognizer.canBeSMILES(String)
must be used instead |
chemaxon.formats.MolInputStream.canBeSMILES(String)
as of Marvin 5.0,
SMILESRecognizer.canBeSMILES(String)
must be used instead |
chemaxon.marvin.beans.MarvinPane.createMenu(ResourceBundle, String)
as of Marvin 3.3.1, replaced by SwingUtil.createMenu |
chemaxon.struc.RgMolecule.createMol(String)
As of Marvin 3.4,
MolImportModule.createMol() must be used. |
chemaxon.marvin.calculations.ResonancePlugin.createStandardizedMolecule(Molecule, boolean)
Use ResonancePlugin.createStandardizedMolecule(Molecule) instead |
chemaxon.marvin.calculations.TautomerizationPlugin.createStandardizedMolecule(Molecule, boolean)
Use TautomerizationPlugin.createStandardizedMolecule(Molecule) instead |
chemaxon.marvin.plugin.CalculatorPlugin.createStandardizedMolecule(Molecule, boolean)
Use CalculatorPlugin.createStandardizedMolecule(Molecule) instead |
chemaxon.struc.Molecule.draw(Graphics, String)
As of release 4.1.6, replaced by chemaxon.marvin.util.MPainterUtil.draw(Molecule,Graphics,String) |
chemaxon.marvin.util.MPainterUtil.draw(MDocument, Graphics, String)
as of Marvin 4.1.8, replaced by
MolPrinter.paint(java.awt.Graphics,java.awt.Rectangle) |
chemaxon.marvin.util.MPainterUtil.draw(Molecule, Graphics, String)
as of Marvin 4.1.8, replaced by
MolPrinter.paint(java.awt.Graphics,java.awt.Rectangle) |
chemaxon.struc.MoleculeGraph.getAromrings()
please use getAromaticAndAliphaticRings instead. |
chemaxon.struc.MoleculeGraph.getAromrings(int)
please use getAromaticAndAliphaticRings instead. |
chemaxon.marvin.beans.MarvinPane.getAtomNumbersVisible()
as of Marvin 2.9.13, replaced by isAtomNumbersVisible. |
chemaxon.marvin.MolPrinter.getBondWidth()
as of Marvin 4.1, replaced by MolPrinter.getBondSpacing() |
chemaxon.marvin.beans.MarvinPane.getBondWidth()
as of Marvin 4.1, replaced by MarvinPane.getBondSpacing() |
chemaxon.marvin.beans.MViewPane.getCanvasComponent(int)
as of Marvin 3.0, replaced by getVisibleCellComponent |
chemaxon.struc.MoleculeGraph.getGrinv(int[], boolean)
Please use getGrinv(int[], int) instead. |
chemaxon.formats.MolInputStream.getJtfFields(String)
as of Marvin 4.1, MFileFormatUtil.getJTFFields(String)
must be used instead |
chemaxon.marvin.beans.MarvinPane.getLabels()
use isAtomSymbolsVisible() instead |
chemaxon.marvin.MolPrinter.getMag()
as of Marvin 2.9.11, replaced by MolPrinter.getScale(). |
chemaxon.marvin.beans.MSketchPane.getMag()
As of Marvin 2.8.1, replaced by getScale() |
chemaxon.marvin.plugin.CalculatorPlugin.getMainMolecule(Molecule)
Use CalculatorPlugin.createModifiedInputMolecule(Molecule) instead |
chemaxon.marvin.beans.MViewPane.getMols()
as of Marvin 4.0, MViewPane.getDocuments() is recommended |
chemaxon.struc.MoleculeGraph.getNonAromrings()
please use getAromaticAndAliphaticRings instead. |
chemaxon.struc.MoleculeGraph.getNonAromrings(int)
please use getAromaticAndAliphaticRings instead. |
chemaxon.marvin.calculations.HuckelAnalysisPlugin.getPiChargeDensity(int)
Use HuckelAnalysisPlugin.getElectronDensity(int) instead |
chemaxon.marvin.calculations.pKaPlugin.getpKa(int, int)
Use pKaPlugin.getpKaValues(int, int) |
chemaxon.formats.recognizer.Recognizer.getPriority()
as of Marvin 5.1,
use MFileFormat.getPriority(java.lang.String) instead |
chemaxon.struc.Molecule.getPropertyKeys()
as of Marvin 4.1, replaced by
properties().getKeys() |
chemaxon.marvin.beans.MarvinPane.getReadGlobalGUIProperties()
since Marvin 5.1 when this and the MarvinPane.getSaveGlobalGUIProperties() function
have been merged. |
chemaxon.marvin.common.UserSettings.getReadGUIPropertiesFromMRV()
since Marvin 5.1 when this and the previous function have been merged. |
chemaxon.marvin.beans.MarvinPane.getSetColor(int)
as of Marvin 3.3, replaced by getAtomSetColor |
chemaxon.marvin.beans.MSketchPane.getSimpView()
as of Marvin 3.5, replaced by MSketchPane.isBondDraggedAlong() |
chemaxon.marvin.calculations.pKaPlugin.getSortedValues(int, double[], int[])
Use pKaPlugin.getMacropKaValues(int,double[],int[]) instead |
chemaxon.struc.MoleculeGraph.getSSSRBondSet()
please use getSSSRBondSetInLong() instead. |
chemaxon.struc.RxnMolecule.getStructure(int, int)
as of Marvin 4.1, replaced by RxnMolecule.getComponent(int, int) |
chemaxon.struc.RxnMolecule.getStructureCount(int)
as of Marvin 4.1, replaced by RxnMolecule.getComponentCount(int) |
chemaxon.marvin.calculations.HuckelAnalysisPlugin.getTotalChargeDensity(int)
Use HuckelAnalysisPlugin.getChargeDensity(int) instead |
chemaxon.marvin.calculations.TPSAPlugin.getTPSA()
as of Marvin 4.1, replaced by
TPSAPlugin.getSurfaceArea() |
chemaxon.formats.MFileFormatUtil.guessPeptideFormat(String)
as of Marvin 5.0,
Base64Recognizer.canBeBase64(String)
must be used instead |
chemaxon.marvin.beans.MarvinPane.initAction(Action, ResourceBundle, String, KeyStroke)
as of Marvin 3.3.1, replaced by SwingUtil.initAction |
chemaxon.marvin.beans.MarvinPane.initButton(AbstractButton, ResourceBundle, String)
as of Marvin 3.3.1, replaced by SwingUtil.initButton |
chemaxon.struc.MolBond.isCoordinative()
As of Marvin 5.0, replaced by
MolBond.isCoordinate() |
chemaxon.formats.MFileFormatUtil.isCubeLine(String, int)
as of Marvin 5.0,
CubeRecognizer.isCubeLine(String, int)
must be used instead |
chemaxon.marvin.beans.MarvinPane.isGrinv()
as of Marvin 3.5, use isGrinvVisible() instead |
chemaxon.marvin.beans.MViewPane.makeHelpMenu(Container)
As of Marvin 3.4,
MarvinPane.addHelpMenu(java.awt.Container) should be used. |
chemaxon.marvin.beans.MViewPane.makeToolsMenu()
As of Marvin 3.4,
MarvinPane.addToolsMenu(java.awt.Container) should be used. |
chemaxon.marvin.MolPrinter.maxMag(Dimension)
as of Marvin 2.9.11, replaced by MolPrinter.maxScale(Dimension). |
chemaxon.struc.MDocument.removeReactionArrow(MDocument)
|
chemaxon.struc.RxnMolecule.removeStructure(int, int)
as of Marvin 4.1, replaced by
RxnMolecule.removeComponent(int, int) |
chemaxon.util.HTMLUtil.replaceString(String, String, String)
as of Marvin 5.0, replaced by
chemaxon.util.StringUtil.replaceAll(String,String,String) |
chemaxon.struc.RgMolecule.setAbsStereo(boolean, int, int)
as of Marvin 5.1.1, please call
MoleculeGraph.setAbsStereo(boolean) for the
component |
chemaxon.marvin.MolPrinter.setBondWidth(double)
as of Marvin 4.1, replaced by MolPrinter.setBondSpacing(double) |
chemaxon.marvin.beans.MarvinPane.setBondWidth(double)
as of Marvin 4.1, replaced by MarvinPane.setBondSpacing(double) |
chemaxon.marvin.calculations.pKaPlugin.setCalcAlways(boolean)
replaced by setModel(int) |
chemaxon.marvin.beans.MarvinPane.setGrinv(boolean)
as of Marvin 3.5, use setGrinvVisible(boolean) instead |
chemaxon.marvin.calculations.ResonancePlugin.setInputMoleculeModified(boolean)
Not used. |
chemaxon.marvin.calculations.TautomerizationPlugin.setInputMoleculeModified(boolean)
Not used. |
chemaxon.marvin.beans.MarvinPane.setLabels(boolean)
use setAtomSymbolsVisible(v) instead |
chemaxon.marvin.MolPrinter.setMag(double)
as of Marvin 2.9.11, replaced by MolPrinter.setScale(double). |
chemaxon.marvin.beans.MSketchPane.setMag(double)
As of Marvin 2.8.1, replaced by setScale() |
chemaxon.marvin.modules.AutoMapper.setMappingMode(int)
Use setMappingStyle(int) instead. |
chemaxon.struc.MolAtom.setMassnoIfKnown(String)
as of Marvin 4.1, replaced by
MolAtom.setForSpecIsotopeSymbol(String) |
chemaxon.marvin.calculations.ResonancePlugin.setpH(double)
As of Marvin 5.0 pH effect is not considered |
chemaxon.marvin.calculations.TautomerizationPlugin.setProtectAromacity(boolean)
Use TautomerizationPlugin.setProtectAromaticity(boolean) |
chemaxon.marvin.common.UserSettings.setReadGUIPropertiesFromMRV(boolean)
since Marvin 5.1 when this and the previous function have been merged. |
chemaxon.marvin.beans.MarvinPane.setSetColor(int, Color)
as of Marvin 3.3, replaced by setAtomSetColor |
chemaxon.marvin.beans.MViewPane.setSetSeq(int, int, int)
as of Marvin 3.3, replaced by setAtomSetSeq |
chemaxon.struc.MoleculeGraph.setSetSeqs(int)
as of Marvin 4.0, replaced by setAtomSetSeq |
chemaxon.marvin.beans.MSketchPane.setSimpView(int)
as of Marvin 3.5, replaced by MSketchPane.setBondDraggedAlong(boolean) |
chemaxon.formats.MolImporter.skipToNext()
As of Marvin 5.0, the record reading/molecule import
separation makes this method unusable |
chemaxon.jep.Evaluator.toString(Object)
For internal use only. |
chemaxon.jep.Evaluator.toString(Object, DecimalFormat)
For internal use only. |
chemaxon.jep.Evaluator.toString(Object, int)
For internal use only. |
chemaxon.struc.sgroup.SuperatomSgroup.updateSgroupCrossings()
as of Marvin 3.3, replaced by Sgroup.findCrossingBonds() |