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gnDNXSource Member List

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

• Clone() const [inline, virtual]
• Close() [virtual]
• GetContigID(const string &name) const [virtual]
• GetContigListLength() const [inline, virtual]
• GetContigName(const uint32 i) const [virtual]
• GetContigSeqLength(const uint32 i) const [virtual]
• GetFileContig(const uint32 contigI) const [virtual]
• GetFilter() const [inline, virtual]
• GetOpenString() const [inline, virtual]
• GetSpec() const [inline, virtual]
• gnBaseSource() [inline]
• gnClone() [inline]
• gnDNXSource()
• gnDNXSource(const gnDNXSource &s)
• gnFileSource() [inline]
• gnFileSource(const gnFileSource &gnfs)
• HasContig(const string &name) const [virtual]
• m_DNXSpec [private]
• m_ifstream [protected]
• m_newlineSize [protected]
• m_newlineType [protected]
• m_openString [protected]
• m_pFilter [protected]
• Open(string openString) [virtual]
• Open() [virtual]
• ParseStream(istream &fin) [private, virtual]
• Read(const uint64 pos, char *buf, uint32 &bufLen) [virtual]
• SeqRead(const gnSeqI start, char *buf, uint32 &bufLen, const uint32 contigI=ALL_CONTIGS) [inline, virtual]
• SetFilter(gnFilter *filter) [inline, virtual]
• ValidateName(string &name) [private, static]
• Write(gnSequence &sequence, const string &filename) [inline, static]
• Write(gnBaseSource *source, const string &filename) [inline, static]
• Write(gnGenomeSpec *spec, const string &filename) [static]
• ~gnBaseSource() [inline, virtual]
• ~gnClone() [inline, virtual]
• ~gnDNXSource()
• ~gnFileSource() [inline, virtual]

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