gnSEQSource Member List

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

BaseCount(const string &bases, gnSeqI &a_count, gnSeqI &c_count, gnSeqI &g_count, gnSeqI &t_count, gnSeqI &other_count)gnSEQSource [private, static]
Clone() constgnSEQSource [inline, virtual]
Close()gnFileSource [virtual]
DetermineNewlineType()gnFileSource [protected]
Filler(uint32 length)gnSEQSource [private, static]
FormatString(string &data, uint32 offset, uint32 width)gnSEQSource [private, static]
GetContigID(const string &name) constgnSEQSource [virtual]
GetContigListLength() constgnSEQSource [inline, virtual]
GetContigName(const uint32 i) constgnSEQSource [virtual]
GetContigSeqLength(const uint32 i) constgnSEQSource [virtual]
GetFileContig(const uint32 contigI) constgnSEQSource [virtual]
GetFilter() constgnFileSource [inline, virtual]
GetOpenString() constgnFileSource [inline, virtual]
GetSpec() constgnSEQSource [inline, virtual]
gnBaseSource()gnBaseSource [inline]
gnClone()gnClone [inline]
gnFileSource()gnFileSource [inline]
gnFileSource(const gnFileSource &gnfs)gnFileSource
gnSEQSource()gnSEQSource
gnSEQSource(const gnSEQSource &s)gnSEQSource
HasContig(const string &name) constgnSEQSource [virtual]
m_contigListgnSEQSource [private]
m_ifstreamgnFileSource [protected]
m_newlineSizegnFileSource [protected]
m_newlineTypegnFileSource [protected]
m_openStringgnFileSource [protected]
m_pFiltergnFileSource [protected]
m_specgnSEQSource [private]
Open(string openString)gnFileSource [virtual]
Open()gnFileSource [virtual]
ParseStream(istream &fin)gnSEQSource [private, virtual]
Read(const uint64 pos, char *buf, gnSeqI &bufLen)gnFileSource [virtual]
SeqRead(const gnSeqI start, char *buf, gnSeqI &bufLen, const uint32 contigI=ALL_CONTIGS)gnSEQSource [virtual]
SeqSeek(const gnSeqI start, const uint32 &contigI, uint64 &startPos, uint64 &readableBytes)gnSEQSource [private]
SeqStartPos(const gnSeqI start, gnFileContig &contig, uint64 &startPos, uint64 &readableBytes)gnSEQSource [private]
SetFilter(gnFilter *filter)gnFileSource [inline, virtual]
Write(gnSequence &sequence, const string &filename)gnSEQSource [inline, static]
Write(gnBaseSource *source, const string &filename)gnSEQSource [inline, static]
Write(gnGenomeSpec *spec, const string &filename)gnSEQSource [static]
~gnBaseSource()gnBaseSource [inline, virtual]
~gnClone()gnClone [inline, virtual]
~gnFileSource()gnFileSource [inline, virtual]
~gnSEQSource()gnSEQSource


Generated on Mon Feb 14 19:29:56 2005 for libGenome by doxygen 1.3.8