halapi
hierarchichalalignmentformatapi
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_array (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [mutable, protected] |
_genome (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [mutable, protected] |
_index (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [mutable, protected] |
dataType(hal_size_t numChildren) (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [static] |
firstChildOffset (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
genomeIndexOffset (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
getArrayIndex() const | hal::HDF5BottomSegment | [inline, virtual] |
getChildIndex(hal_size_t i) const | hal::HDF5BottomSegment | [inline, virtual] |
getChildReversed(hal_size_t i) const | hal::HDF5BottomSegment | [inline, virtual] |
getGenome() const | hal::HDF5BottomSegment | [inline, virtual] |
getGenome() | hal::HDF5BottomSegment | [inline, virtual] |
getLength() const | hal::HDF5BottomSegment | [inline, virtual] |
getNextParalogyIndex() const | hal::HDF5BottomSegment | [inline, virtual] |
getNumChildren() const | hal::HDF5BottomSegment | [inline, virtual] |
getStartPosition() const | hal::HDF5BottomSegment | [inline, virtual] |
getTopParseIndex() const | hal::HDF5BottomSegment | [inline, virtual] |
getTopParseOffset() const | hal::HDF5BottomSegment | [inline, virtual] |
HDF5BottomSegment(HDF5Genome *genome, HDF5ExternalArray *array, hal_index_t index) | hal::HDF5BottomSegment | |
HDF5BottomSegmentIterator (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [friend] |
HDF5TopSegmentIterator (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [friend] |
lengthOffset (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
numChildrenFromDataType(const H5::DataType &dataType) (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [static] |
parIndexOffset (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
setChildIndex(hal_size_t i, hal_index_t childIndex) | hal::HDF5BottomSegment | [inline, virtual] |
setChildReversed(hal_size_t child, hal_bool_t isReversed) | hal::HDF5BottomSegment | [inline, virtual] |
setLength(hal_size_t length) | hal::HDF5BottomSegment | [inline, virtual] |
setNextParalogyIndex(hal_index_t parIdx) | hal::HDF5BottomSegment | [inline, virtual] |
setStartPosition(hal_index_t startPos) | hal::HDF5BottomSegment | [inline, virtual] |
setTopParseIndex(hal_index_t parseIndex) | hal::HDF5BottomSegment | [inline, virtual] |
setTopParseOffset(hal_offset_t parseOffset) | hal::HDF5BottomSegment | [inline, virtual] |
topIndexOffset (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
topOffsetOffset (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
totalSize(hal_size_t numChildren) (defined in hal::HDF5BottomSegment) | hal::HDF5BottomSegment | [protected, static] |
~BottomSegment()=0 | hal::BottomSegment | [inline, protected, pure virtual] |
~HDF5BottomSegment() | hal::HDF5BottomSegment | |
~Segment()=0 | hal::Segment | [inline, protected, pure virtual] |