OpenMS  2.8.0
MzMLHandler Member List

This is the complete list of members for MzMLHandler, including all inherited members.

ActionMode enum nameXMLHandler
addSpectrumMetaData_(const std::vector< MzMLHandlerHelper::BinaryData > &input_data, const Size n, SpectrumType &spectrum) constMzMLHandlerprotected
asBool_(const String &in) constXMLHandlerinlineprotected
asDateTime_(String date_string) constXMLHandlerinlineprotected
asDouble_(const String &in) constXMLHandlerinlineprotected
asFloat_(const String &in) constXMLHandlerinlineprotected
asInt_(const String &in) constXMLHandlerinlineprotected
asInt_(const XMLCh *in) constXMLHandlerinlineprotected
asUInt_(const String &in) constXMLHandlerinlineprotected
attributeAsDouble_(const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
attributeAsDouble_(const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
attributeAsDoubleList_(const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
attributeAsDoubleList_(const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
attributeAsInt_(const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
attributeAsInt_(const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
attributeAsIntList_(const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
attributeAsIntList_(const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
attributeAsString_(const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
attributeAsString_(const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
attributeAsStringList_(const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
attributeAsStringList_(const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
bin_data_MzMLHandlerprotected
BinaryData typedefMzMLHandlerprotected
cached_terms_MzMLHandlermutableprotected
cexp_MzMLHandlerprotected
characters(const XMLCh *const chars, const XMLSize_t length) overrideMzMLHandler
checkUniqueIdentifiers_(const std::vector< ProteinIdentification > &prot_ids) constXMLHandler
chrom_count_total_MzMLHandlerprotected
chromatogram_MzMLHandlerprotected
chromatogram_count_MzMLHandlerprotected
chromatogram_data_MzMLHandlerprotected
ChromatogramPeakType typedefMzMLHandlerprotected
chromatograms_offsets_MzMLHandlerprotected
ChromatogramType typedefMzMLHandlerprotected
consumer_MzMLHandlerprotected
current_id_MzMLHandlerprotected
cv_MzMLHandlerprotected
cv_terms_XMLHandlerprotected
cvStringToEnum_(const Size section, const String &term, const char *message, const SignedSize result_on_error=0)XMLHandlerprotected
default_array_length_MzMLHandlerprotected
default_processing_MzMLHandlerprotected
endElement(const XMLCh *const, const XMLCh *const, const XMLCh *const qname) overrideMzMLHandler
equal_(const XMLCh *a, const XMLCh *b) constXMLHandlerinlineprotected
error(const xercesc::SAXParseException &exception) overrideXMLHandler
error(ActionMode mode, const String &msg, UInt line=0, UInt column=0) constXMLHandler
error_message_XMLHandlermutableprotected
errorString()XMLHandler
exp_MzMLHandlerprotected
expectList_(const String &str) constXMLHandlerinlineprivate
fatalError(const xercesc::SAXParseException &exception) overrideXMLHandler
fatalError(ActionMode mode, const String &msg, UInt line=0, UInt column=0) constXMLHandler
file_XMLHandlerprotected
fillChromatogramData_()MzMLHandlerprotected
getChildWithName_(const String &parent_accession, const String &name) constMzMLHandlerprotected
getCounts(Size &spectra_counts, Size &chromatogram_counts)MzMLHandler
getLoadDetail() const overrideMzMLHandlervirtual
getOptions()MzMLHandler
handleCVParam_(const String &parent_parent_tag, const String &parent_tag, const String &accession, const String &name, const String &value, const String &unit_accession="")MzMLHandlerprotected
handleUserParam_(const String &parent_parent_tag, const String &parent_tag, const String &name, const String &type, const String &value, const String &unit_accession="")MzMLHandlerprotected
in_spectrum_list_MzMLHandlerprotected
instruments_MzMLHandlerprotected
LD_ALLDATA enum valueXMLHandler
LD_COUNTS_WITHOPTIONS enum valueXMLHandler
LD_RAWCOUNTS enum valueXMLHandler
LOAD enum valueXMLHandler
load_detail_XMLHandlerprotected
LOADDETAIL enum nameXMLHandler
logger_MzMLHandlerprotected
mapping_MzMLHandlerprotected
MzMLHandler(MapType &exp, const String &filename, const String &version, const ProgressLogger &logger)MzMLHandler
MzMLHandler(const MapType &exp, const String &filename, const String &version, const ProgressLogger &logger)MzMLHandler
MzMLHandler(const String &filename, const String &version, const ProgressLogger &logger)MzMLHandlerprotected
open_tags_XMLHandlerprotected
optionalAttributeAsDouble_(double &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsDouble_(double &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
optionalAttributeAsDoubleList_(DoubleList &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsDoubleList_(DoubleList &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
optionalAttributeAsInt_(Int &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsInt_(Int &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
optionalAttributeAsIntList_(IntList &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsIntList_(IntList &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
optionalAttributeAsString_(String &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsString_(String &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
optionalAttributeAsStringList_(StringList &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsStringList_(StringList &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
optionalAttributeAsUInt_(UInt &value, const xercesc::Attributes &a, const char *name) constXMLHandlerinlineprotected
optionalAttributeAsUInt_(UInt &value, const xercesc::Attributes &a, const XMLCh *name) constXMLHandlerinlineprotected
options_MzMLHandlerprotected
PeakType typedefMzMLHandlerprotected
populateChromatogramsWithData_()MzMLHandlerprotected
populateChromatogramsWithData_(std::vector< MzMLHandlerHelper::BinaryData > &input_data, Size &length, const PeakFileOptions &peak_file_options, ChromatogramType &chromatogram)MzMLHandlerprotected
populateSpectraWithData_()MzMLHandlerprotected
populateSpectraWithData_(std::vector< MzMLHandlerHelper::BinaryData > &input_data, Size &length, const PeakFileOptions &peak_file_options, SpectrumType &spectrum)MzMLHandlerprotected
processing_MzMLHandlerprotected
ref_param_MzMLHandlerprotected
reset()XMLHandler
rt_set_MzMLHandlerprotected
samples_MzMLHandlerprotected
scan_count_MzMLHandlerprotected
scan_count_total_MzMLHandlerprotected
selected_ion_count_MzMLHandlerprotected
setLoadDetail(const LOADDETAIL d) overrideMzMLHandlervirtual
setMSDataConsumer(Interfaces::IMSDataConsumer *consumer)MzMLHandler
setOptions(const PeakFileOptions &opt)MzMLHandler
skip_chromatogram_MzMLHandlerprotected
skip_spectrum_MzMLHandlerprotected
sm_XMLHandlerprotected
software_MzMLHandlerprotected
source_files_MzMLHandlerprotected
spec_MzMLHandlerprotected
spectra_offsets_MzMLHandlerprotected
spectrum_data_MzMLHandlerprotected
SpectrumType typedefMzMLHandlerprotected
startElement(const XMLCh *const, const XMLCh *const, const XMLCh *const qname, const xercesc::Attributes &attributes) overrideMzMLHandler
STORE enum valueXMLHandler
validateCV_(const ControlledVocabulary::CVTerm &c, const String &path, const Internal::MzMLValidator &validator) constMzMLHandlerprotected
version_XMLHandlerprotected
warning(const xercesc::SAXParseException &exception) overrideXMLHandler
warning(ActionMode mode, const String &msg, UInt line=0, UInt column=0) constXMLHandler
writeBinaryDataArray_(std::ostream &os, const PeakFileOptions &options, std::vector< DataType > &data, bool is32bit, String array_type)MzMLHandlerprotected
writeBinaryFloatDataArray_(std::ostream &os, const PeakFileOptions &options, const OpenMS::DataArrays::FloatDataArray &array, const Size spec_chrom_idx, const Size array_idx, bool is_spectrum, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeChromatogram_(std::ostream &os, const ChromatogramType &chromatogram, Size chrom_idx, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeContainerData_(std::ostream &os, const PeakFileOptions &pf_options_, const ContainerT &container, String array_type)MzMLHandlerprotected
writeCV_(const ControlledVocabulary::CVTerm &c, const DataValue &metaValue) constMzMLHandlerprotected
writeDataProcessing_(std::ostream &os, const String &id, const std::vector< ConstDataProcessingPtr > &dps, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeHeader_(std::ostream &os, const MapType &exp, std::vector< std::vector< ConstDataProcessingPtr > > &dps, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writePrecursor_(std::ostream &os, const Precursor &precursor, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeProduct_(std::ostream &os, const Product &product, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeSoftware_(std::ostream &os, const String &id, const Software &software, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeSourceFile_(std::ostream &os, const String &id, const SourceFile &software, const Internal::MzMLValidator &validator)MzMLHandlerprotected
writeSpectrum_(std::ostream &os, const SpectrumType &spec, Size spec_idx, const Internal::MzMLValidator &validator, bool renew_native_ids, std::vector< std::vector< ConstDataProcessingPtr > > &dps)MzMLHandlerprotected
writeTo(std::ostream &os) overrideMzMLHandlervirtual
writeUserParam_(std::ostream &os, const MetaInfoInterface &meta, UInt indent, const String &path, const Internal::MzMLValidator &validator, const std::set< String > &exclude={}) constMzMLHandlerprotected
OpenMS::Internal::XMLHandler::writeUserParam_(const String &tag_name, std::ostream &os, const MetaInfoInterface &meta, UInt indent) constXMLHandlerprotected
writeXMLEscape(const String &to_escape)XMLHandlerinlinestatic
XMLHandler(const String &filename, const String &version)XMLHandler
XMLHandler()XMLHandlerprivate
~MzMLHandler() overrideMzMLHandler
~XMLHandler() overrideXMLHandler