| Clear() | gnSourceSpec | [virtual] |
| Clone() const | gnSourceSpec | [inline, virtual] |
| CloneRange(const gnSeqI startI, const gnSeqI len) const | gnSourceSpec | [virtual] |
| gnContigSpec::CloneRange(const uint32 startI, const uint32 len) const=0 | gnContigSpec | [pure virtual] |
| CropEnd(gnSeqI cropLen) | gnContigSpec | [virtual] |
| CropStart(gnSeqI cropLen) | gnContigSpec | [virtual] |
| GetLength() const | gnContigSpec | [inline, virtual] |
| GetName() const | gnBaseSpec | [inline, virtual] |
| GetSource() const | gnSourceSpec | [inline, virtual] |
| GetSourceContigIndex() const | gnContigSpec | [inline, virtual] |
| GetSourceLength() const | gnSourceSpec | [inline, virtual] |
| GetSourceName() const | gnContigSpec | [inline, virtual] |
| GetStart() const | gnContigSpec | [inline, virtual] |
| gnBaseSpec() | gnBaseSpec | [inline] |
| gnClone() | gnClone | [inline] |
| gnContigSpec() | gnContigSpec | [inline] |
| gnSourceSpec() | gnSourceSpec | |
| gnSourceSpec(gnBaseSource *m_pSource, const uint32 m_ContigIndex=ALL_CONTIGS, const gnSeqI startI=0, const gnSeqI endI=GNSEQI_END, const boolean revComp=false) | gnSourceSpec | |
| gnSourceSpec(const gnSourceSpec &s) | gnSourceSpec | |
| IsCircular() const | gnBaseSpec | [inline, virtual] |
| IsReverseComplement() const | gnBaseSpec | [inline, virtual] |
| m_circular | gnBaseSpec | [protected] |
| m_length | gnContigSpec | [protected] |
| m_name | gnBaseSpec | [protected] |
| m_pSource | gnSourceSpec | [protected] |
| m_reverseComplement | gnBaseSpec | [protected] |
| m_SourceContigIndex | gnContigSpec | [protected] |
| m_sourceName | gnBaseSpec | [protected] |
| m_start | gnContigSpec | [protected] |
| Read(const gnSeqI start, gnSeqC *buf, uint32 &bufLen) const | gnSourceSpec | [inline, protected, virtual] |
| SeqRead(const gnSeqI start, gnSeqC *buf, uint32 &bufLen, const uint32 contigI) const | gnContigSpec | [virtual] |
| SetCircular(const boolean value) | gnBaseSpec | [inline, virtual] |
| SetLength(const gnSeqI len) | gnContigSpec | [inline, virtual] |
| SetName(const string &name) | gnBaseSpec | [inline, virtual] |
| SetReverseComplement(const boolean value) | gnContigSpec | [virtual] |
| SetSourceContigIndex(const uint32 contigI) | gnContigSpec | [inline, virtual] |
| SetSourceName(const string &sourceName) | gnContigSpec | [inline, virtual] |
| SetStart(const gnSeqI start) | gnContigSpec | [inline, virtual] |
| ~gnBaseSpec() | gnBaseSpec | [inline, virtual] |
| ~gnClone() | gnClone | [inline, virtual] |
| ~gnContigSpec() | gnContigSpec | [inline, virtual] |
| ~gnSourceSpec() | gnSourceSpec | |
