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SuffixArrayTrypticCompressed Member List

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

AVERAGE enum valueWeightWrapper
findFirst_(const std::vector< double > &spec, double &m)SuffixArrayTrypticCompressedprotected
findFirst_(const std::vector< double > &spec, double &m, SignedSize start, SignedSize end)SuffixArrayTrypticCompressedprotected
findSpec(std::vector< std::vector< std::pair< std::pair< SignedSize, SignedSize >, double > > > &candidates, const std::vector< double > &spec)SuffixArrayTrypticCompressedvirtual
getLCP_(const std::pair< SignedSize, SignedSize > &last_point, const std::pair< SignedSize, SignedSize > &current_point)SuffixArrayTrypticCompressedprotected
getNextSep_(const SignedSize p) const SuffixArrayTrypticCompressedprotected
getNumberOfModifications()SuffixArrayTrypticCompressedvirtual
getTags()SuffixArrayTrypticCompressedvirtual
getTolerance() const SuffixArrayTrypticCompressedvirtual
getUseTags()SuffixArrayTrypticCompressedvirtual
getWeight(const AASequence &aa) const WeightWrapper
getWeight(const EmpiricalFormula &ef) const WeightWrapper
getWeight(const Residue &r, Residue::ResidueType res_type=Residue::Full) const WeightWrapper
getWeightMode() const WeightWrapper
hasMoreOutgoings_(SignedSize start_index, SignedSize stop_index, SignedSize walked_in)SuffixArrayTrypticCompressedprotected
indices_SuffixArrayTrypticCompressedprotected
isDigestingEnd(const char aa1, const char aa2) const SuffixArrayTrypticCompressedvirtual
lcp_SuffixArrayTrypticCompressedprotected
masse_SuffixArrayTrypticCompressedprotected
MONO enum valueWeightWrapper
number_of_modifications_SuffixArrayTrypticCompressedprotected
open(const String &file_name)SuffixArrayTrypticCompressedvirtual
parseTree_(SignedSize start_index, SignedSize stop_index, SignedSize depth, SignedSize walked_in, SignedSize edge_len, std::vector< std::pair< SignedSize, SignedSize > > &out_number, std::vector< std::pair< SignedSize, SignedSize > > &edge_length, std::vector< SignedSize > &leafe_depth)SuffixArrayTrypticCompressedprotected
printStatistic()SuffixArrayTrypticCompressedvirtual
progress_SuffixArrayTrypticCompressedprotected
s_SuffixArrayTrypticCompressedprotected
save(const String &file_name)SuffixArrayTrypticCompressedvirtual
setNumberOfModifications(Size number_of_mods)SuffixArrayTrypticCompressedvirtual
setTags(const std::vector< String > &tags)SuffixArrayTrypticCompressedvirtual
setTolerance(double t)SuffixArrayTrypticCompressedvirtual
setUseTags(bool use_tags)SuffixArrayTrypticCompressedvirtual
setWeightMode(const WEIGHTMODE mode)WeightWrapper
SIZE_OF_WEIGHTMODE enum valueWeightWrapper
skip_SuffixArrayTrypticCompressedprotected
SuffixArray(const String &st, const String &filename)SuffixArray
SuffixArray(const SuffixArray &sa)SuffixArray
SuffixArray()SuffixArray
SuffixArrayTrypticCompressed(const String &st, const String &filename, const WeightWrapper::WEIGHTMODE weight_mode=WeightWrapper::MONO)SuffixArrayTrypticCompressed
SuffixArrayTrypticCompressed(const SuffixArrayTrypticCompressed &sa)SuffixArrayTrypticCompressed
SuffixArrayTrypticCompressed()SuffixArrayTrypticCompressedprotected
tags_SuffixArrayTrypticCompressedprotected
tol_SuffixArrayTrypticCompressedprotected
toString()SuffixArrayTrypticCompressedvirtual
use_tags_SuffixArrayTrypticCompressedprotected
WEIGHTMODE enum nameWeightWrapper
WeightWrapper()WeightWrapper
WeightWrapper(const WEIGHTMODE weight_mode)WeightWrapperexplicit
WeightWrapper(const WeightWrapper &source)WeightWrapper
~SuffixArray()=0SuffixArraypure virtual
~SuffixArrayTrypticCompressed()SuffixArrayTrypticCompressedvirtual
~WeightWrapper()WeightWrappervirtual

OpenMS / TOPP release 2.0.0 Documentation generated on Wed Mar 30 2016 16:18:46 using doxygen 1.8.5