| ActionMode enum name | XMLHandler | protected |
| asBool_(const String &in) | XMLHandler | inlineprotected |
| asDateTime_(String date_string) | XMLHandler | inlineprotected |
| asDouble_(const String &in) | XMLHandler | inlineprotected |
| asFloat_(const String &in) | XMLHandler | inlineprotected |
| asInt_(const String &in) | XMLHandler | inlineprotected |
| asInt_(const XMLCh *in) | XMLHandler | inlineprotected |
| asUInt_(const String &in) | XMLHandler | inlineprotected |
| attributeAsDouble_(const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| attributeAsDouble_(const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| attributeAsDoubleList_(const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| attributeAsDoubleList_(const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| attributeAsInt_(const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| attributeAsInt_(const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| attributeAsIntList_(const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| attributeAsIntList_(const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| attributeAsString_(const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| attributeAsString_(const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| attributeAsStringList_(const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| attributeAsStringList_(const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| characters(const XMLCh *const chars, const XMLSize_t) | XTandemXMLFile | protectedvirtual |
| current_charge_ | XTandemXMLFile | private |
| current_id_ | XTandemXMLFile | private |
| current_protein_ | XTandemXMLFile | private |
| current_start_ | XTandemXMLFile | private |
| current_stop_ | XTandemXMLFile | private |
| cv_terms_ | XMLHandler | protected |
| cvStringToEnum_(const Size section, const String &term, const char *message, const SignedSize result_on_error=0) | XMLHandler | inlineprotected |
| default_nterm_mods_ | XTandemXMLFile | private |
| endElement(const XMLCh *const, const XMLCh *const, const XMLCh *const qname) | XTandemXMLFile | protectedvirtual |
| enforced_encoding_ | XMLFile | protected |
| enforceEncoding_(const String &encoding) | XMLFile | protected |
| equal_(const XMLCh *a, const XMLCh *b) const | XMLHandler | inlineprotected |
| error(const xercesc::SAXParseException &exception) | XMLHandler | protected |
| error(ActionMode mode, const String &msg, UInt line=0, UInt column=0) const | XMLHandler | protected |
| error_message_ | XMLHandler | mutableprotected |
| errorString() | XMLHandler | protected |
| fatalError(const xercesc::SAXParseException &exception) | XMLHandler | protected |
| fatalError(ActionMode mode, const String &msg, UInt line=0, UInt column=0) const | XMLHandler | protected |
| file_ | XMLHandler | protected |
| getVersion() const | XMLFile | |
| is_protein_note_ | XTandemXMLFile | private |
| is_spectrum_note_ | XTandemXMLFile | private |
| isValid(const String &filename, std::ostream &os) | XMLFile | |
| load(const String &filename, ProteinIdentification &protein_identification, std::vector< PeptideIdentification > &id_data, ModificationDefinitionsSet &mod_def_set) | XTandemXMLFile | |
| LOAD enum value | XMLHandler | protected |
| mod_def_set_ | XTandemXMLFile | private |
| open_tags_ | XMLHandler | protected |
| operator=(const XTandemXMLFile &rhs) | XTandemXMLFile | protected |
| optionalAttributeAsDouble_(double &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsDouble_(double &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsDoubleList_(DoubleList &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsDoubleList_(DoubleList &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsInt_(Int &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsInt_(Int &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsIntList_(IntList &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsIntList_(IntList &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsString_(String &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsString_(String &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsStringList_(StringList &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsStringList_(StringList &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsUInt_(UInt &value, const xercesc::Attributes &a, const char *name) const | XMLHandler | inlineprotected |
| optionalAttributeAsUInt_(UInt &value, const xercesc::Attributes &a, const XMLCh *name) const | XMLHandler | inlineprotected |
| parse_(const String &filename, XMLHandler *handler) | XMLFile | protected |
| peptide_hits_ | XTandemXMLFile | private |
| previous_seq_ | XTandemXMLFile | private |
| protein_hits_ | XTandemXMLFile | private |
| protein_identification_ | XTandemXMLFile | private |
| protein_uids_ | XTandemXMLFile | private |
| reset() | XMLHandler | protected |
| save_(const String &filename, XMLHandler *handler) const | XMLFile | protected |
| schema_location_ | XMLFile | protected |
| schema_version_ | XMLFile | protected |
| sm_ | XMLHandler | protected |
| spectrum_ids_ | XTandemXMLFile | private |
| startElement(const XMLCh *const, const XMLCh *const, const XMLCh *const qname, const xercesc::Attributes &attributes) | XTandemXMLFile | protectedvirtual |
| STORE enum value | XMLHandler | protected |
| tag_ | XTandemXMLFile | private |
| version_ | XMLHandler | protected |
| warning(const xercesc::SAXParseException &exception) | XMLHandler | protected |
| warning(ActionMode mode, const String &msg, UInt line=0, UInt column=0) const | XMLHandler | protected |
| writeTo(std::ostream &) | XMLHandler | protectedvirtual |
| writeUserParam_(const String &tag_name, std::ostream &os, const MetaInfoInterface &meta, UInt indent) const | XMLHandler | protected |
| writeXMLEscape(const String &to_escape) | XMLHandler | inlineprotectedstatic |
| XMLFile() | XMLFile | |
| XMLFile(const String &schema_location, const String &version) | XMLFile | |
| XMLHandler(const String &filename, const String &version) | XMLHandler | protected |
| XTandemXMLFile() | XTandemXMLFile | |
| XTandemXMLFile(const XTandemXMLFile &rhs) | XTandemXMLFile | protected |
| ~XMLFile() | XMLFile | virtual |
| ~XMLHandler() | XMLHandler | protectedvirtual |
| ~XTandemXMLFile() | XTandemXMLFile | virtual |