| AddToSeqLength(const gnSeqI len) | gnFileContig | [inline] |
| Clear() | gnFileContig | |
| Clone() const | gnFileContig | [inline, virtual] |
| GetFileLength() const | gnFileContig | [inline] |
| GetFileStartEnd() const | gnFileContig | [inline] |
| GetName() const | gnFileContig | [inline] |
| GetRepeatSeqGapSize() const | gnFileContig | [inline] |
| GetSectLength(gnContigSection i) const | gnFileContig | [inline] |
| GetSectStartEnd(const gnContigSection i) const | gnFileContig | [inline] |
| GetSeqLength() const | gnFileContig | [inline] |
| gnClone() | gnClone | [inline] |
| gnFileContig() | gnFileContig | |
| gnFileContig(string nameStr, const uint64 pos, const uint64 len) | gnFileContig | |
| gnFileContig(const gnFileContig &fc) | gnFileContig | |
| HasRepeatSeqGap() const | gnFileContig | [inline] |
| m_fileStartEnd | gnFileContig | [private] |
| m_name | gnFileContig | [private] |
| m_repeatSeqGap | gnFileContig | [private] |
| m_repeatSeqGapSize | gnFileContig | [private] |
| m_seqLength | gnFileContig | [private] |
| m_startEndArray | gnFileContig | [private] |
| SetFileEnd(const uint64 e) | gnFileContig | [inline] |
| SetFileStart(const uint64 s) | gnFileContig | [inline] |
| SetFileStartEnd(const pair< uint64, uint64 > se) | gnFileContig | [inline] |
| SetName(string nameStr) | gnFileContig | [inline] |
| SetRepeatGapSize(const uint64 gapSize) | gnFileContig | |
| SetRepeatSeqGap(const boolean rsg) | gnFileContig | [inline] |
| SetRepeatSeqGapSize(const pair< uint64, uint64 > rsgSize) | gnFileContig | [inline] |
| SetRepeatSeqSize(const uint64 seqSize) | gnFileContig | |
| SetSectEnd(const gnContigSection i, const uint64 e) | gnFileContig | [inline] |
| SetSectStart(const gnContigSection i, const uint64 s) | gnFileContig | [inline] |
| SetSectStartEnd(const gnContigSection i, const pair< uint64, uint64 > se) | gnFileContig | [inline] |
| SetSeqLength(const gnSeqI len) | gnFileContig | [inline] |
| ~gnClone() | gnClone | [inline, virtual] |
| ~gnFileContig() | gnFileContig | |