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nvbio::io::SequenceDataFile_SAM Member List

This is the complete list of members for nvbio::io::SequenceDataFile_SAM, including all inherited members.

append(const Alphabet alphabet, SequenceDataHost *data, SequenceDataInputStream *stream, const uint32 batch_size, const uint32 batch_bps=uint32(-1))nvbio::io::SequenceDataInputStreamrelated
FILE_EOF enum valuenvbio::io::SequenceDataFile
FILE_NOT_READY enum valuenvbio::io::SequenceDataFile
FILE_OK enum valuenvbio::io::SequenceDataFile
FILE_OPEN_FAILED enum valuenvbio::io::SequenceDataFile
FILE_PARSE_ERROR enum valuenvbio::io::SequenceDataFile
FILE_STREAM_ERROR enum valuenvbio::io::SequenceDataFile
FileState enum namenvbio::io::SequenceDataFile
init(void)nvbio::io::SequenceDataFile_SAM
is_ok(void)nvbio::io::SequenceDataFileinlinevirtual
LINE_BUFFER_INIT_SIZE enum valuenvbio::io::SequenceDataFile_SAM
LONG_READnvbio::io::SequenceDataFilestatic
m_file_statenvbio::io::SequenceDataFileprotected
m_loadednvbio::io::SequenceDataFileprotected
m_optionsnvbio::io::SequenceDataFileprotected
next(struct SequenceDataEncoder *encoder, const uint32 batch_size, const uint32 batch_bps)nvbio::io::SequenceDataFilevirtual
nvbio::io::SequenceDataInputStream::next(const Alphabet alphabet, SequenceDataHost *data, SequenceDataInputStream *stream, const uint32 batch_size, const uint32 batch_bps=uint32(-1))nvbio::io::SequenceDataInputStreamrelated
nextChunk(struct SequenceDataEncoder *output, uint32 max_reads, uint32 max_bps)nvbio::io::SequenceDataFile_SAMvirtual
open_sequence_file(const char *sequence_file_name, const QualityEncoding qualities=Phred33, const uint32 max_seqs=uint32(-1), const uint32 max_sequence_len=uint32(-1), const SequenceEncoding flags=FORWARD, const uint32 trim3=0, const uint32 trim5=0)nvbio::io::SequenceDataInputStreamrelated
rewind()nvbio::io::SequenceDataFile_SAMvirtual
SequenceDataFile(const Options &options)nvbio::io::SequenceDataFileinlineprotected
SequenceDataFile_SAM(const char *read_file_name, const SequenceDataFile::Options &options)nvbio::io::SequenceDataFile_SAM
skip(SequenceDataInputStream *stream, const uint32 batch_size)nvbio::io::SequenceDataInputStreamrelated
SortOrder enum namenvbio::io::SequenceDataFile_SAM
SortOrder_coordinate enum valuenvbio::io::SequenceDataFile_SAM
SortOrder_queryname enum valuenvbio::io::SequenceDataFile_SAM
SortOrder_unknown enum valuenvbio::io::SequenceDataFile_SAM
SortOrder_unsorted enum valuenvbio::io::SequenceDataFile_SAM
sq_lengthsnvbio::io::SequenceDataFile_SAM
sq_namesnvbio::io::SequenceDataFile_SAM
~SequenceDataFile()nvbio::io::SequenceDataFileinlinevirtual
~SequenceDataInputStream()nvbio::io::SequenceDataInputStreaminlinevirtual