ConsensusXMLFile Member List

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

accession_to_id_	ConsensusXMLFile	protected
act_cons_element_	ConsensusXMLFile	protected
ActionMode enum name	XMLHandler
addProteinGroups_(MetaInfoInterface &meta, const std::vector< ProteinIdentification::ProteinGroup > &groups, const String &group_name, const std::unordered_map< std::string, UInt > &accession_to_id, const String &runid, XMLHandler::ActionMode mode)	ConsensusXMLFile	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 length) override	ConsensusXMLFile	protected
checkUniqueIdentifiers_(const std::vector< ProteinIdentification > &prot_ids)	XMLHandler
CMD enum value	ProgressLogger
consensus_map_	ConsensusXMLFile	protected
ConsensusXMLFile()	ConsensusXMLFile
current_logger_	ProgressLogger	mutableprotected
cv_terms_	XMLHandler	protected
cvStringToEnum_(const Size section, const String &term, const char *message, const SignedSize result_on_error=0)	XMLHandler	inlineprotected
endElement(const XMLCh *const, const XMLCh *const, const XMLCh *const qname) override	ConsensusXMLFile	protected
endProgress() const	ProgressLogger
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) override	XMLHandler
error(ActionMode mode, const String &msg, UInt line=0, UInt column=0) const	XMLHandler
error_message_	XMLHandler	mutableprotected
errorString()	XMLHandler
expectList_(const String &str) const	XMLHandler	inlineprivate
fatalError(const xercesc::SAXParseException &exception) override	XMLHandler
fatalError(ActionMode mode, const String &msg, UInt line=0, UInt column=0) const	XMLHandler
file_	XMLHandler	protected
getLoadDetail() const	XMLHandler	virtual
getLogType() const	ProgressLogger
getOptions()	ConsensusXMLFile
getOptions() const	ConsensusXMLFile
getProteinGroups_(std::vector< ProteinIdentification::ProteinGroup > &groups, const String &group_name)	ConsensusXMLFile	protected
getVersion() const	XMLFile
GUI enum value	ProgressLogger
id_identifier_	ConsensusXMLFile	protected
identifier_id_	ConsensusXMLFile	protected
isValid(const String &filename, std::ostream &os)	XMLFile
it_	ConsensusXMLFile	protected
last_invoke_	ProgressLogger	mutableprotected
last_meta_	ConsensusXMLFile	protected
LD_ALLDATA enum value	XMLHandler
LD_COUNTS_WITHOPTIONS enum value	XMLHandler
LD_RAWCOUNTS enum value	XMLHandler
load(const String &filename, ConsensusMap &map)	ConsensusXMLFile
LOAD enum value	XMLHandler
load_detail_	XMLHandler	protected
LOADDETAIL enum name	XMLHandler
LogType enum name	ProgressLogger
logTypeToFactoryName_(LogType type)	ProgressLogger	protectedstatic
nextProgress() const	ProgressLogger
NONE enum value	ProgressLogger
open_tags_	XMLHandler	protected
operator=(const ProgressLogger &other)	ProgressLogger
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
options_	ConsensusXMLFile	protected
parse_(const String &filename, XMLHandler *handler)	XMLFile	protected
parseBuffer_(const std::string &buffer, XMLHandler *handler)	XMLFile	protected
pep_hit_	ConsensusXMLFile	protected
pep_id_	ConsensusXMLFile	protected
peptide_evidences_	ConsensusXMLFile	protected
pos_	ConsensusXMLFile	protected
progress_	ConsensusXMLFile	protected
ProgressLogger()	ProgressLogger
ProgressLogger(const ProgressLogger &other)	ProgressLogger
prot_hit_	ConsensusXMLFile	protected
prot_id_	ConsensusXMLFile	protected
proteinid_to_accession_	ConsensusXMLFile	protected
recursion_depth_	ProgressLogger	protectedstatic
reset()	XMLHandler
save_(const String &filename, XMLHandler *handler) const	XMLFile	protected
schema_location_	XMLFile	protected
schema_version_	XMLFile	protected
search_param_	ConsensusXMLFile	protected
setLoadDetail(const LOADDETAIL d)	XMLHandler	virtual
setLogType(LogType type) const	ProgressLogger
setProgress(SignedSize value) const	ProgressLogger
sm_	XMLHandler	protected
startElement(const XMLCh *const, const XMLCh *const, const XMLCh *const qname, const xercesc::Attributes &attributes) override	ConsensusXMLFile	protected
startProgress(SignedSize begin, SignedSize end, const String &label) const	ProgressLogger
STORE enum value	XMLHandler
store(const String &filename, const ConsensusMap &consensus_map)	ConsensusXMLFile
type_	ProgressLogger	mutableprotected
version_	XMLHandler	protected
warning(const xercesc::SAXParseException &exception) override	XMLHandler
warning(ActionMode mode, const String &msg, UInt line=0, UInt column=0) const	XMLHandler
writePeptideIdentification_(const String &filename, std::ostream &os, const PeptideIdentification &id, const String &tag_name, UInt indentation_level)	ConsensusXMLFile	protected
writeTo(std::ostream &)	XMLHandler	virtual
writeUserParam_(const String &tag_name, std::ostream &os, const MetaInfoInterface &meta, UInt indent) const	XMLHandler	protected
writeXMLEscape(const String &to_escape)	XMLHandler	inlinestatic
XMLFile()	XMLFile
XMLFile(const String &schema_location, const String &version)	XMLFile
XMLHandler(const String &filename, const String &version)	XMLHandler
XMLHandler()	XMLHandler	private
~ConsensusXMLFile() override	ConsensusXMLFile
~ProgressLogger()	ProgressLogger
~XMLFile()	XMLFile	virtual
~XMLHandler() override	XMLHandler