Logo Search packages:      
Sourcecode: cdk version File versions  Download package

void org::openscience::cdk::tools::LoggingTool::error ( Object  object ) [inline]

Shows ERROR output for the Object. It uses the toString() method.

Parameters:
objectObject to apply toString() too and output

Definition at line 402 of file LoggingTool.java.

Referenced by org::openscience::cdk::templates::AminoAcids::aaBondInfo(), org::openscience::cdk::tools::AtomTypeTools::assignAtomTypePropertiesToAtom(), org::openscience::cdk::protein::ProteinPocketFinder::assignVdWRadiiToProtein(), org::openscience::cdk::debug::DebugStrand::clone(), org::openscience::cdk::debug::DebugSingleElectron::clone(), org::openscience::cdk::debug::DebugRing::clone(), org::openscience::cdk::debug::DebugReactionSet::clone(), org::openscience::cdk::debug::DebugReactionScheme::clone(), org::openscience::cdk::debug::DebugReaction::clone(), org::openscience::cdk::debug::DebugPseudoAtom::clone(), org::openscience::cdk::debug::DebugPolymer::clone(), org::openscience::cdk::debug::DebugMonomer::clone(), org::openscience::cdk::debug::DebugMoleculeSet::clone(), org::openscience::cdk::debug::DebugMolecule::clone(), org::openscience::cdk::debug::DebugMapping::clone(), org::openscience::cdk::debug::DebugLonePair::clone(), org::openscience::cdk::debug::DebugIsotope::clone(), org::openscience::cdk::debug::DebugFragmentAtom::clone(), org::openscience::cdk::debug::DebugElement::clone(), org::openscience::cdk::debug::DebugElectronContainer::clone(), org::openscience::cdk::debug::DebugCrystal::clone(), org::openscience::cdk::debug::DebugChemSequence::clone(), org::openscience::cdk::debug::DebugChemObject::clone(), org::openscience::cdk::debug::DebugChemModel::clone(), org::openscience::cdk::debug::DebugChemFile::clone(), org::openscience::cdk::debug::DebugBond::clone(), org::openscience::cdk::debug::DebugBioPolymer::clone(), org::openscience::cdk::debug::DebugAtomType::clone(), org::openscience::cdk::debug::DebugAtomContainerSet::clone(), org::openscience::cdk::debug::DebugAtomContainer::clone(), org::openscience::cdk::debug::DebugAtom::clone(), org::openscience::cdk::debug::DebugAminoAcid::clone(), configureLog4j(), org::openscience::cdk::templates::AminoAcids::createAAs(), org::openscience::cdk::io::ReaderFactory::createReader(), org::openscience::cdk::io::WriterFactory::createWriter(), org::openscience::cdk::config::ElementPTFactory::ElementPTFactory(), org::openscience::cdk::io::cml::MDMoleculeConvention::endElement(), org::openscience::cdk::io::iterator::event::EventCMLHandler::endObject(), org::openscience::cdk::tools::StructureResonanceGenerator::existAC(), org::openscience::cdk::reaction::ReactionEngine::extractMechanism(), org::openscience::cdk::atomtype::StructGenMatcher::findMatchingAtomType(), org::openscience::cdk::atomtype::MMFF94AtomTypeMatcher::findMatchingAtomType(), org::openscience::cdk::atomtype::MM2AtomTypeMatcher::findMatchingAtomType(), org::openscience::cdk::formula::MassToFormulaTool::generate(), org::openscience::cdk::modeling::builder3d::ModelBuilder3D::generate3DCoordinates(), org::openscience::cdk::renderer::JCPAction2D::getAction(), org::openscience::cdk::config::AtomTypeFactory::getAllAtomTypes(), org::openscience::cdk::config::AtomTypeFactory::getAtomTypes(), org::openscience::cdk::geometry::GeometryTools::getBondCoordinates(), org::openscience::cdk::io::cml::CMLResolver::getCMLType(), org::openscience::cdk::qsar::DescriptorEngine::getDescriptorClassNameByInterface(), org::openscience::cdk::qsar::DescriptorEngine::getDescriptorClassNameByPackage(), org::openscience::cdk::qsar::DescriptorEngine::getDictionaryClass(), org::openscience::cdk::dict::DictionaryDatabase::getDictionaryEntries(), org::openscience::cdk::config::ElementPTFactory::getElement(), org::openscience::cdk::config::IsotopeFactory::getIsotopes(), org::openscience::cdk::tools::GenerateFragments::getLinkerFragmentsAsSmileArray(), org::openscience::cdk::config::IsotopeFactory::getMajorIsotope(), org::openscience::cdk::tools::GenerateFragments::getMurckoFrameworksAsSmileArray(), org::openscience::cdk::tools::GenerateFragments::getRingFragmentsAsSmileArray(), org::openscience::cdk::renderer::JCPAction2D::getSource(), org::openscience::cdk::io::iterator::IteratingMDLReader::hasNext(), org::openscience::cdk::io::INChIReader::init(), org::openscience::cdk::reaction::ReactionEngine::initiateParameterMap2(), org::openscience::cdk::config::IsotopeFactory::IsotopeFactory(), org::openscience::cdk::tools::SmilesValencyChecker::isSaturated(), org::openscience::cdk::formula::MolecularFormulaChecker::isValid(), org::openscience::cdk::io::random::RandomAccessReader::makeIndex(), org::openscience::cdk::isomorphism::AtomMappingTools::mapAtomsOfAlignedStructures(), org::openscience::cdk::isomorphism::matchers::smarts::RecursiveSmartsAtom::matches(), org::openscience::cdk::io::CIFReader::parseIntoDouble(), org::openscience::cdk::smiles::SmilesParser::parseString(), org::openscience::cdk::atomtype::StructGenAtomTypeGuesser::possibleAtomTypes(), org::openscience::cdk::ringsearch::FiguerasSSSRFinder::prepareRing(), org::openscience::cdk::io::cml::CMLErrorHandler::print(), org::openscience::cdk::qsar::DescriptorEngine::process(), org::openscience::cdk::io::iterator::event::EventCMLReader::process(), org::openscience::cdk::io::inchi::INChIContentProcessorTool::processConnections(), org::openscience::cdk::io::inchi::INChIContentProcessorTool::processFormula(), org::openscience::cdk::structgen::RandomGenerator::proposeStructure(), org::openscience::cdk::io::VASPReader::read(), org::openscience::cdk::io::ShelXReader::read(), org::openscience::cdk::io::CIFReader::read(), org::openscience::cdk::io::PDBReader::readAtom(), org::openscience::cdk::config::atomtypes::OWLAtomTypeReader::readAtomTypes(), org::openscience::cdk::config::atomtypes::AtomTypeReader::readAtomTypes(), org::openscience::cdk::protein::ProteinPocketFinder::readBioPolymer(), org::openscience::cdk::io::XYZReader::readChemFile(), org::openscience::cdk::io::PDBReader::readChemFile(), org::openscience::cdk::io::MDLV2000Reader::readChemFile(), org::openscience::cdk::io::MDLReader::readChemFile(), org::openscience::cdk::io::INChIReader::readChemFile(), org::openscience::cdk::config::AtomTypeFactory::readConfiguration(), org::openscience::cdk::dict::DictionaryDatabase::readDictionary(), org::openscience::cdk::config::elements::ElementPTReader::readElements(), org::openscience::cdk::config::isotopes::IsotopeReader::readIsotopes(), org::openscience::cdk::io::Mol2Reader::readMolecule(), org::openscience::cdk::io::MDLV2000Reader::readMolecule(), org::openscience::cdk::io::MDLReader::readMolecule(), org::openscience::cdk::io::MDLRXNReader::readReactionSet(), org::openscience::cdk::structgen::VicinitySampler::sample(), org::openscience::cdk::modeling::builder3d::ModelBuilder3D::searchAndPlaceBranches(), org::openscience::cdk::modeling::builder3d::ModelBuilder3D::setForceField(), org::openscience::cdk::layout::StructureDiagramGenerator::setMolecule(), org::openscience::cdk::io::iterator::event::EventCMLHandler::setObjectProperty(), org::openscience::cdk::protein::ProteinPocketFinder::sitefinder(), org::openscience::cdk::smiles::SmilesParser::SmilesParser(), org::openscience::cdk::io::cml::MDMoleculeConvention::startElement(), org::openscience::cdk::dict::OWLReact::unmarshal(), org::openscience::cdk::io::SDFWriter::write(), org::openscience::cdk::io::MDLWriter::write(), org::openscience::cdk::io::CDKSourceCodeWriter::write(), org::openscience::cdk::io::XYZWriter::writeMolecule(), org::openscience::cdk::io::SMILESWriter::writeMolecule(), org::openscience::cdk::io::MDLRXNWriter::writeMoleculeSet(), and org::openscience::cdk::io::MDLRXNWriter::writeReaction().

                                     {
        if (doDebug) {
            errorString("" + object);
        }
    }

Generated by  Doxygen 1.6.0   Back to index