Loading...
Searching...
No Matches
BamTools::Constants Namespace Reference

Provides basic constants for handling BAM files. More...

## Variables

const uint8_t | BAM_SIZEOF_INT = 4
const char *const | BAM_HEADER_MAGIC = "BAM\1"
const uint8_t | BAM_HEADER_MAGIC_LENGTH = 4
const uint8_t | BAM_CORE_SIZE = 32
const uint8_t | BAM_CORE_BUFFER_SIZE = 8
const int | BAM_ALIGNMENT_PAIRED = 0x0001
const int | BAM_ALIGNMENT_PROPER_PAIR = 0x0002
const int | BAM_ALIGNMENT_UNMAPPED = 0x0004
const int | BAM_ALIGNMENT_MATE_UNMAPPED = 0x0008
const int | BAM_ALIGNMENT_REVERSE_STRAND = 0x0010
const int | BAM_ALIGNMENT_MATE_REVERSE_STRAND = 0x0020
const int | BAM_ALIGNMENT_READ_1 = 0x0040
const int | BAM_ALIGNMENT_READ_2 = 0x0080
const int | BAM_ALIGNMENT_SECONDARY = 0x0100
const int | BAM_ALIGNMENT_QC_FAILED = 0x0200
const int | BAM_ALIGNMENT_DUPLICATE = 0x0400
const int | BAM_ALIGNMENT_SUPPLEMENTARY = 0x0800
const char *const | BAM_CIGAR_LOOKUP = "MIDNSHP=X"
const uint8_t | BAM_CIGAR_MATCH = 0
const uint8_t | BAM_CIGAR_INS = 1
const uint8_t | BAM_CIGAR_DEL = 2
const uint8_t | BAM_CIGAR_REFSKIP = 3
const uint8_t | BAM_CIGAR_SOFTCLIP = 4
const uint8_t | BAM_CIGAR_HARDCLIP = 5
const uint8_t | BAM_CIGAR_PAD = 6
const uint8_t | BAM_CIGAR_SEQMATCH = 7
const uint8_t | BAM_CIGAR_MISMATCH = 8
const char | BAM_CIGAR_MATCH_CHAR = 'M'
const char | BAM_CIGAR_INS_CHAR = 'I'
const char | BAM_CIGAR_DEL_CHAR = 'D'
const char | BAM_CIGAR_REFSKIP_CHAR = 'N'
const char | BAM_CIGAR_SOFTCLIP_CHAR = 'S'
const char | BAM_CIGAR_HARDCLIP_CHAR = 'H'
const char | BAM_CIGAR_PAD_CHAR = 'P'
const char | BAM_CIGAR_SEQMATCH_CHAR = '='
const char | BAM_CIGAR_MISMATCH_CHAR = 'X'
const int | BAM_CIGAR_SHIFT = 4
const int | BAM_CIGAR_MASK = ((1 << BAM_CIGAR_SHIFT) - 1)
const char | BAM_TAG_TYPE_ASCII = 'A'
const char | BAM_TAG_TYPE_INT8 = 'c'
const char | BAM_TAG_TYPE_UINT8 = 'C'
const char | BAM_TAG_TYPE_INT16 = 's'
const char | BAM_TAG_TYPE_UINT16 = 'S'
const char | BAM_TAG_TYPE_INT32 = 'i'
const char | BAM_TAG_TYPE_UINT32 = 'I'
const char | BAM_TAG_TYPE_FLOAT = 'f'
const char | BAM_TAG_TYPE_STRING = 'Z'
const char | BAM_TAG_TYPE_HEX = 'H'
const char | BAM_TAG_TYPE_ARRAY = 'B'
const uint8_t | BAM_TAG_TAGSIZE = 2
const uint8_t | BAM_TAG_TYPESIZE = 1
const uint8_t | BAM_TAG_ARRAYBASE_SIZE = 8
const char *const | BAM_DNA_LOOKUP = "=ACMGRSVTWYHKDBN"
const uint8_t | BAM_BASECODE_EQUAL = 0
const uint8_t | BAM_BASECODE_A = 1
const uint8_t | BAM_BASECODE_C = 2
const uint8_t | BAM_BASECODE_M = 3
const uint8_t | BAM_BASECODE_G = 4
const uint8_t | BAM_BASECODE_R = 5
const uint8_t | BAM_BASECODE_S = 6
const uint8_t | BAM_BASECODE_V = 7
const uint8_t | BAM_BASECODE_T = 8
const uint8_t | BAM_BASECODE_W = 9
const uint8_t | BAM_BASECODE_Y = 10
const uint8_t | BAM_BASECODE_H = 11
const uint8_t | BAM_BASECODE_K = 12
const uint8_t | BAM_BASECODE_D = 13
const uint8_t | BAM_BASECODE_B = 14
const uint8_t | BAM_BASECODE_N = 15
const char | BAM_DNA_EQUAL = '='
const char | BAM_DNA_A = 'A'
const char | BAM_DNA_C = 'C'
const char | BAM_DNA_M = 'M'
const char | BAM_DNA_G = 'G'
const char | BAM_DNA_R = 'R'
const char | BAM_DNA_S = 'S'
const char | BAM_DNA_V = 'V'
const char | BAM_DNA_T = 'T'
const char | BAM_DNA_W = 'W'
const char | BAM_DNA_Y = 'Y'
const char | BAM_DNA_H = 'H'
const char | BAM_DNA_K = 'K'
const char | BAM_DNA_D = 'D'
const char | BAM_DNA_B = 'B'
const char | BAM_DNA_N = 'N'
const char | BAM_DNA_DEL = '-'
const char | BAM_DNA_PAD = '*'
const char | GZIP_ID1 = 31
const char | GZIP_ID2 = static_cast<char>(139)
const char | CM_DEFLATE = 8
const char | FLG_FEXTRA = 4
const char | OS_UNKNOWN = static_cast<char>(255)
const char | BGZF_XLEN = 6
const char | BGZF_ID1 = 66
const char | BGZF_ID2 = 67
const char | BGZF_LEN = 2
const int8_t | GZIP_WINDOW_BITS = -15
const int8_t | Z_DEFAULT_MEM_LEVEL = 8
const uint8_t | BGZF_BLOCK_HEADER_LENGTH = 18
const uint8_t | BGZF_BLOCK_FOOTER_LENGTH = 8
const uint32_t | BGZF_MAX_BLOCK_SIZE = 65536
const uint32_t | BGZF_DEFAULT_BLOCK_SIZE = 65536
const char | SAM_COLON = ':'
const char | SAM_EQUAL = '='
const char | SAM_PERIOD = '.'
const char | SAM_STAR = '*'
const char | SAM_TAB = '\t'
const std::string | SAM_DIGITS = "0123456789"
const std::string | SAM_CURRENT_VERSION = "1.4"
const std::string | SAM_HD_BEGIN_TOKEN = "@HD"
const std::string | SAM_HD_VERSION_TAG = "VN"
const std::string | SAM_HD_SORTORDER_TAG = "SO"
const std::string | SAM_HD_GROUPORDER_TAG = "GO"
const std::string | SAM_SQ_BEGIN_TOKEN = "@SQ"
const std::string | SAM_SQ_ASSEMBLYID_TAG = "AS"
const std::string | SAM_SQ_CHECKSUM_TAG = "M5"
const std::string | SAM_SQ_LENGTH_TAG = "LN"
const std::string | SAM_SQ_NAME_TAG = "SN"
const std::string | SAM_SQ_SPECIES_TAG = "SP"
const std::string | SAM_SQ_URI_TAG = "UR"
const std::string | SAM_RG_BEGIN_TOKEN = "@RG"
const std::string | SAM_RG_DESCRIPTION_TAG = "DS"
const std::string | SAM_RG_FLOWORDER_TAG = "FO"
const std::string | SAM_RG_ID_TAG = "ID"
const std::string | SAM_RG_KEYSEQUENCE_TAG = "KS"
const std::string | SAM_RG_LIBRARY_TAG = "LB"
const std::string | SAM_RG_PLATFORMUNIT_TAG = "PU"
const std::string | SAM_RG_PREDICTEDINSERTSIZE_TAG = "PI"
const std::string | SAM_RG_PRODUCTIONDATE_TAG = "DT"
const std::string | SAM_RG_PROGRAM_TAG = "PG"
const std::string | SAM_RG_SAMPLE_TAG = "SM"
const std::string | SAM_RG_SEQCENTER_TAG = "CN"
const std::string | SAM_RG_SEQTECHNOLOGY_TAG = "PL"
const std::string | SAM_PG_BEGIN_TOKEN = "@PG"
const std::string | SAM_PG_COMMANDLINE_TAG = "CL"
const std::string | SAM_PG_ID_TAG = "ID"
const std::string | SAM_PG_NAME_TAG = "PN"
const std::string | SAM_PG_PREVIOUSPROGRAM_TAG = "PP"
const std::string | SAM_PG_VERSION_TAG = "VN"
const std::string | SAM_CO_BEGIN_TOKEN = "@CO"
const std::string | SAM_HD_SORTORDER_COORDINATE = "coordinate"
const std::string | SAM_HD_SORTORDER_QUERYNAME = "queryname"
const std::string | SAM_HD_SORTORDER_UNKNOWN = "unknown"
const std::string | SAM_HD_SORTORDER_UNSORTED = "unsorted"
const std::string | SAM_HD_GROUPORDER_NONE = "none"
const std::string | SAM_HD_GROUPORDER_QUERY = "query"
const std::string | SAM_HD_GROUPORDER_REFERENCE = "reference"
const unsigned int | SAM_SQ_LENGTH_MIN = 1
const unsigned int | SAM_SQ_LENGTH_MAX = 536870911
const std::string | SAM_RG_SEQTECHNOLOGY_CAPILLARY = "CAPILLARY"
const std::string | SAM_RG_SEQTECHNOLOGY_HELICOS = "HELICOS"
const std::string | SAM_RG_SEQTECHNOLOGY_ILLUMINA = "ILLUMINA"
const std::string | SAM_RG_SEQTECHNOLOGY_IONTORRENT = "IONTORRENT"
const std::string | SAM_RG_SEQTECHNOLOGY_LS454 = "LS454"
const std::string | SAM_RG_SEQTECHNOLOGY_PACBIO = "PACBIO"
const std::string | SAM_RG_SEQTECHNOLOGY_SOLID = "SOLID"

## Detailed Description

Provides basic constants for handling BAM files.

## Variable Documentation

## BAM_ALIGNMENT_DUPLICATE

const int BamTools::Constants::BAM_ALIGNMENT_DUPLICATE = 0x0400

## BAM_ALIGNMENT_MATE_REVERSE_STRAND

const int BamTools::Constants::BAM_ALIGNMENT_MATE_REVERSE_STRAND = 0x0020

## BAM_ALIGNMENT_MATE_UNMAPPED

const int BamTools::Constants::BAM_ALIGNMENT_MATE_UNMAPPED = 0x0008

## BAM_ALIGNMENT_PAIRED

const int BamTools::Constants::BAM_ALIGNMENT_PAIRED = 0x0001

## BAM_ALIGNMENT_PROPER_PAIR

const int BamTools::Constants::BAM_ALIGNMENT_PROPER_PAIR = 0x0002

## BAM_ALIGNMENT_QC_FAILED

const int BamTools::Constants::BAM_ALIGNMENT_QC_FAILED = 0x0200

## BAM_ALIGNMENT_READ_1

const int BamTools::Constants::BAM_ALIGNMENT_READ_1 = 0x0040

## BAM_ALIGNMENT_READ_2

const int BamTools::Constants::BAM_ALIGNMENT_READ_2 = 0x0080

## BAM_ALIGNMENT_REVERSE_STRAND

const int BamTools::Constants::BAM_ALIGNMENT_REVERSE_STRAND = 0x0010

## BAM_ALIGNMENT_SECONDARY

const int BamTools::Constants::BAM_ALIGNMENT_SECONDARY = 0x0100

## BAM_ALIGNMENT_SUPPLEMENTARY

const int BamTools::Constants::BAM_ALIGNMENT_SUPPLEMENTARY = 0x0800

## BAM_ALIGNMENT_UNMAPPED

const int BamTools::Constants::BAM_ALIGNMENT_UNMAPPED = 0x0004

## BAM_BASECODE_A

const uint8_t BamTools::Constants::BAM_BASECODE_A = 1

## BAM_BASECODE_B

const uint8_t BamTools::Constants::BAM_BASECODE_B = 14

## BAM_BASECODE_C

const uint8_t BamTools::Constants::BAM_BASECODE_C = 2

## BAM_BASECODE_D

const uint8_t BamTools::Constants::BAM_BASECODE_D = 13

## BAM_BASECODE_EQUAL

const uint8_t BamTools::Constants::BAM_BASECODE_EQUAL = 0

## BAM_BASECODE_G

const uint8_t BamTools::Constants::BAM_BASECODE_G = 4

## BAM_BASECODE_H

const uint8_t BamTools::Constants::BAM_BASECODE_H = 11

## BAM_BASECODE_K

const uint8_t BamTools::Constants::BAM_BASECODE_K = 12

## BAM_BASECODE_M

const uint8_t BamTools::Constants::BAM_BASECODE_M = 3

## BAM_BASECODE_N

const uint8_t BamTools::Constants::BAM_BASECODE_N = 15

## BAM_BASECODE_R

const uint8_t BamTools::Constants::BAM_BASECODE_R = 5

## BAM_BASECODE_S

const uint8_t BamTools::Constants::BAM_BASECODE_S = 6

## BAM_BASECODE_T

const uint8_t BamTools::Constants::BAM_BASECODE_T = 8

## BAM_BASECODE_V

const uint8_t BamTools::Constants::BAM_BASECODE_V = 7

## BAM_BASECODE_W

const uint8_t BamTools::Constants::BAM_BASECODE_W = 9

## BAM_BASECODE_Y

const uint8_t BamTools::Constants::BAM_BASECODE_Y = 10

## BAM_CIGAR_DEL

const uint8_t BamTools::Constants::BAM_CIGAR_DEL = 2

## BAM_CIGAR_DEL_CHAR

const char BamTools::Constants::BAM_CIGAR_DEL_CHAR = 'D'

## BAM_CIGAR_HARDCLIP

const uint8_t BamTools::Constants::BAM_CIGAR_HARDCLIP = 5

## BAM_CIGAR_HARDCLIP_CHAR

const char BamTools::Constants::BAM_CIGAR_HARDCLIP_CHAR = 'H'

## BAM_CIGAR_INS

const uint8_t BamTools::Constants::BAM_CIGAR_INS = 1

## BAM_CIGAR_INS_CHAR

const char BamTools::Constants::BAM_CIGAR_INS_CHAR = 'I'

## BAM_CIGAR_LOOKUP

const char* const BamTools::Constants::BAM_CIGAR_LOOKUP = "MIDNSHP=X"

## BAM_CIGAR_MASK

const int BamTools::Constants::BAM_CIGAR_MASK = ((1 << BAM_CIGAR_SHIFT) - 1)

## BAM_CIGAR_MATCH

const uint8_t BamTools::Constants::BAM_CIGAR_MATCH = 0

## BAM_CIGAR_MATCH_CHAR

const char BamTools::Constants::BAM_CIGAR_MATCH_CHAR = 'M'

## BAM_CIGAR_MISMATCH

const uint8_t BamTools::Constants::BAM_CIGAR_MISMATCH = 8

## BAM_CIGAR_MISMATCH_CHAR

const char BamTools::Constants::BAM_CIGAR_MISMATCH_CHAR = 'X'

## BAM_CIGAR_PAD

const uint8_t BamTools::Constants::BAM_CIGAR_PAD = 6

## BAM_CIGAR_PAD_CHAR

const char BamTools::Constants::BAM_CIGAR_PAD_CHAR = 'P'

## BAM_CIGAR_REFSKIP

const uint8_t BamTools::Constants::BAM_CIGAR_REFSKIP = 3

## BAM_CIGAR_REFSKIP_CHAR

const char BamTools::Constants::BAM_CIGAR_REFSKIP_CHAR = 'N'

## BAM_CIGAR_SEQMATCH

const uint8_t BamTools::Constants::BAM_CIGAR_SEQMATCH = 7

## BAM_CIGAR_SEQMATCH_CHAR

const char BamTools::Constants::BAM_CIGAR_SEQMATCH_CHAR = '='

## BAM_CIGAR_SHIFT

const int BamTools::Constants::BAM_CIGAR_SHIFT = 4

## BAM_CIGAR_SOFTCLIP

const uint8_t BamTools::Constants::BAM_CIGAR_SOFTCLIP = 4

## BAM_CIGAR_SOFTCLIP_CHAR

const char BamTools::Constants::BAM_CIGAR_SOFTCLIP_CHAR = 'S'

## BAM_CORE_BUFFER_SIZE

const uint8_t BamTools::Constants::BAM_CORE_BUFFER_SIZE = 8

## BAM_CORE_SIZE

const uint8_t BamTools::Constants::BAM_CORE_SIZE = 32

## BAM_DNA_A

const char BamTools::Constants::BAM_DNA_A = 'A'

## BAM_DNA_B

const char BamTools::Constants::BAM_DNA_B = 'B'

## BAM_DNA_C

const char BamTools::Constants::BAM_DNA_C = 'C'

## BAM_DNA_D

const char BamTools::Constants::BAM_DNA_D = 'D'

## BAM_DNA_DEL

const char BamTools::Constants::BAM_DNA_DEL = '-'

## BAM_DNA_EQUAL

const char BamTools::Constants::BAM_DNA_EQUAL = '='

## BAM_DNA_G

const char BamTools::Constants::BAM_DNA_G = 'G'

## BAM_DNA_H

const char BamTools::Constants::BAM_DNA_H = 'H'

## BAM_DNA_K

const char BamTools::Constants::BAM_DNA_K = 'K'

## BAM_DNA_LOOKUP

const char* const BamTools::Constants::BAM_DNA_LOOKUP = "=ACMGRSVTWYHKDBN"

## BAM_DNA_M

const char BamTools::Constants::BAM_DNA_M = 'M'

## BAM_DNA_N

const char BamTools::Constants::BAM_DNA_N = 'N'

## BAM_DNA_PAD

const char BamTools::Constants::BAM_DNA_PAD = '*'

## BAM_DNA_R

const char BamTools::Constants::BAM_DNA_R = 'R'

## BAM_DNA_S

const char BamTools::Constants::BAM_DNA_S = 'S'

## BAM_DNA_T

const char BamTools::Constants::BAM_DNA_T = 'T'

## BAM_DNA_V

const char BamTools::Constants::BAM_DNA_V = 'V'

## BAM_DNA_W

const char BamTools::Constants::BAM_DNA_W = 'W'

## BAM_DNA_Y

const char BamTools::Constants::BAM_DNA_Y = 'Y'

## BAM_HEADER_MAGIC

const char* const BamTools::Constants::BAM_HEADER_MAGIC = "BAM\1"

## BAM_HEADER_MAGIC_LENGTH

const uint8_t BamTools::Constants::BAM_HEADER_MAGIC_LENGTH = 4

## BAM_SIZEOF_INT

const uint8_t BamTools::Constants::BAM_SIZEOF_INT = 4

## BAM_TAG_ARRAYBASE_SIZE

const uint8_t BamTools::Constants::BAM_TAG_ARRAYBASE_SIZE = 8

## BAM_TAG_TAGSIZE

const uint8_t BamTools::Constants::BAM_TAG_TAGSIZE = 2

## BAM_TAG_TYPE_ARRAY

const char BamTools::Constants::BAM_TAG_TYPE_ARRAY = 'B'

## BAM_TAG_TYPE_ASCII

const char BamTools::Constants::BAM_TAG_TYPE_ASCII = 'A'

## BAM_TAG_TYPE_FLOAT

const char BamTools::Constants::BAM_TAG_TYPE_FLOAT = 'f'

## BAM_TAG_TYPE_HEX

const char BamTools::Constants::BAM_TAG_TYPE_HEX = 'H'

## BAM_TAG_TYPE_INT16

const char BamTools::Constants::BAM_TAG_TYPE_INT16 = 's'

## BAM_TAG_TYPE_INT32

const char BamTools::Constants::BAM_TAG_TYPE_INT32 = 'i'

## BAM_TAG_TYPE_INT8

const char BamTools::Constants::BAM_TAG_TYPE_INT8 = 'c'

## BAM_TAG_TYPE_STRING

const char BamTools::Constants::BAM_TAG_TYPE_STRING = 'Z'

## BAM_TAG_TYPE_UINT16

const char BamTools::Constants::BAM_TAG_TYPE_UINT16 = 'S'

## BAM_TAG_TYPE_UINT32

const char BamTools::Constants::BAM_TAG_TYPE_UINT32 = 'I'

## BAM_TAG_TYPE_UINT8

const char BamTools::Constants::BAM_TAG_TYPE_UINT8 = 'C'

## BAM_TAG_TYPESIZE

const uint8_t BamTools::Constants::BAM_TAG_TYPESIZE = 1

## BGZF_BLOCK_FOOTER_LENGTH

const uint8_t BamTools::Constants::BGZF_BLOCK_FOOTER_LENGTH = 8

## BGZF_BLOCK_HEADER_LENGTH

const uint8_t BamTools::Constants::BGZF_BLOCK_HEADER_LENGTH = 18

## BGZF_DEFAULT_BLOCK_SIZE

const uint32_t BamTools::Constants::BGZF_DEFAULT_BLOCK_SIZE = 65536

## BGZF_ID1

const char BamTools::Constants::BGZF_ID1 = 66

## BGZF_ID2

const char BamTools::Constants::BGZF_ID2 = 67

## BGZF_LEN

const char BamTools::Constants::BGZF_LEN = 2

## BGZF_MAX_BLOCK_SIZE

const uint32_t BamTools::Constants::BGZF_MAX_BLOCK_SIZE = 65536

## BGZF_XLEN

const char BamTools::Constants::BGZF_XLEN = 6

## CM_DEFLATE

const char BamTools::Constants::CM_DEFLATE = 8

## FLG_FEXTRA

const char BamTools::Constants::FLG_FEXTRA = 4

## GZIP_ID1

const char BamTools::Constants::GZIP_ID1 = 31

## GZIP_ID2

const char BamTools::Constants::GZIP_ID2 = static_cast<char>(139)

## GZIP_WINDOW_BITS

const int8_t BamTools::Constants::GZIP_WINDOW_BITS = -15

## OS_UNKNOWN

const char BamTools::Constants::OS_UNKNOWN = static_cast<char>(255)

## SAM_CO_BEGIN_TOKEN

const std::string BamTools::Constants::SAM_CO_BEGIN_TOKEN = "@CO"

## SAM_COLON

const char BamTools::Constants::SAM_COLON = ':'

## SAM_CURRENT_VERSION

const std::string BamTools::Constants::SAM_CURRENT_VERSION = "1.4"

## SAM_DIGITS

const std::string BamTools::Constants::SAM_DIGITS = "0123456789"

## SAM_EQUAL

const char BamTools::Constants::SAM_EQUAL = '='

## SAM_HD_BEGIN_TOKEN

const std::string BamTools::Constants::SAM_HD_BEGIN_TOKEN = "@HD"

## SAM_HD_GROUPORDER_NONE

const std::string BamTools::Constants::SAM_HD_GROUPORDER_NONE = "none"

## SAM_HD_GROUPORDER_QUERY

const std::string BamTools::Constants::SAM_HD_GROUPORDER_QUERY = "query"

## SAM_HD_GROUPORDER_REFERENCE

const std::string BamTools::Constants::SAM_HD_GROUPORDER_REFERENCE = "reference"

## SAM_HD_GROUPORDER_TAG

const std::string BamTools::Constants::SAM_HD_GROUPORDER_TAG = "GO"

## SAM_HD_SORTORDER_COORDINATE

const std::string BamTools::Constants::SAM_HD_SORTORDER_COORDINATE = "coordinate"

## SAM_HD_SORTORDER_QUERYNAME

const std::string BamTools::Constants::SAM_HD_SORTORDER_QUERYNAME = "queryname"

## SAM_HD_SORTORDER_TAG

const std::string BamTools::Constants::SAM_HD_SORTORDER_TAG = "SO"

## SAM_HD_SORTORDER_UNKNOWN

const std::string BamTools::Constants::SAM_HD_SORTORDER_UNKNOWN = "unknown"

## SAM_HD_SORTORDER_UNSORTED

const std::string BamTools::Constants::SAM_HD_SORTORDER_UNSORTED = "unsorted"

## SAM_HD_VERSION_TAG

const std::string BamTools::Constants::SAM_HD_VERSION_TAG = "VN"

## SAM_PERIOD

const char BamTools::Constants::SAM_PERIOD = '.'

## SAM_PG_BEGIN_TOKEN

const std::string BamTools::Constants::SAM_PG_BEGIN_TOKEN = "@PG"

## SAM_PG_COMMANDLINE_TAG

const std::string BamTools::Constants::SAM_PG_COMMANDLINE_TAG = "CL"

## SAM_PG_ID_TAG

const std::string BamTools::Constants::SAM_PG_ID_TAG = "ID"

## SAM_PG_NAME_TAG

const std::string BamTools::Constants::SAM_PG_NAME_TAG = "PN"

## SAM_PG_PREVIOUSPROGRAM_TAG

const std::string BamTools::Constants::SAM_PG_PREVIOUSPROGRAM_TAG = "PP"

## SAM_PG_VERSION_TAG

const std::string BamTools::Constants::SAM_PG_VERSION_TAG = "VN"

## SAM_RG_BEGIN_TOKEN

const std::string BamTools::Constants::SAM_RG_BEGIN_TOKEN = "@RG"

## SAM_RG_DESCRIPTION_TAG

const std::string BamTools::Constants::SAM_RG_DESCRIPTION_TAG = "DS"

## SAM_RG_FLOWORDER_TAG

const std::string BamTools::Constants::SAM_RG_FLOWORDER_TAG = "FO"

## SAM_RG_ID_TAG

const std::string BamTools::Constants::SAM_RG_ID_TAG = "ID"

## SAM_RG_KEYSEQUENCE_TAG

const std::string BamTools::Constants::SAM_RG_KEYSEQUENCE_TAG = "KS"

## SAM_RG_LIBRARY_TAG

const std::string BamTools::Constants::SAM_RG_LIBRARY_TAG = "LB"

## SAM_RG_PLATFORMUNIT_TAG

const std::string BamTools::Constants::SAM_RG_PLATFORMUNIT_TAG = "PU"

## SAM_RG_PREDICTEDINSERTSIZE_TAG

const std::string BamTools::Constants::SAM_RG_PREDICTEDINSERTSIZE_TAG = "PI"

## SAM_RG_PRODUCTIONDATE_TAG

const std::string BamTools::Constants::SAM_RG_PRODUCTIONDATE_TAG = "DT"

## SAM_RG_PROGRAM_TAG

const std::string BamTools::Constants::SAM_RG_PROGRAM_TAG = "PG"

## SAM_RG_SAMPLE_TAG

const std::string BamTools::Constants::SAM_RG_SAMPLE_TAG = "SM"

## SAM_RG_SEQCENTER_TAG

const std::string BamTools::Constants::SAM_RG_SEQCENTER_TAG = "CN"

## SAM_RG_SEQTECHNOLOGY_CAPILLARY

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_CAPILLARY = "CAPILLARY"

## SAM_RG_SEQTECHNOLOGY_HELICOS

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_HELICOS = "HELICOS"

## SAM_RG_SEQTECHNOLOGY_ILLUMINA

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_ILLUMINA = "ILLUMINA"

## SAM_RG_SEQTECHNOLOGY_IONTORRENT

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_IONTORRENT = "IONTORRENT"

## SAM_RG_SEQTECHNOLOGY_LS454

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_LS454 = "LS454"

## SAM_RG_SEQTECHNOLOGY_PACBIO

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_PACBIO = "PACBIO"

## SAM_RG_SEQTECHNOLOGY_SOLID

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_SOLID = "SOLID"

## SAM_RG_SEQTECHNOLOGY_TAG

const std::string BamTools::Constants::SAM_RG_SEQTECHNOLOGY_TAG = "PL"

## SAM_SQ_ASSEMBLYID_TAG

const std::string BamTools::Constants::SAM_SQ_ASSEMBLYID_TAG = "AS"

## SAM_SQ_BEGIN_TOKEN

const std::string BamTools::Constants::SAM_SQ_BEGIN_TOKEN = "@SQ"

## SAM_SQ_CHECKSUM_TAG

const std::string BamTools::Constants::SAM_SQ_CHECKSUM_TAG = "M5"

## SAM_SQ_LENGTH_MAX

const unsigned int BamTools::Constants::SAM_SQ_LENGTH_MAX = 536870911

## SAM_SQ_LENGTH_MIN

const unsigned int BamTools::Constants::SAM_SQ_LENGTH_MIN = 1

## SAM_SQ_LENGTH_TAG

const std::string BamTools::Constants::SAM_SQ_LENGTH_TAG = "LN"

## SAM_SQ_NAME_TAG

const std::string BamTools::Constants::SAM_SQ_NAME_TAG = "SN"

## SAM_SQ_SPECIES_TAG

const std::string BamTools::Constants::SAM_SQ_SPECIES_TAG = "SP"

## SAM_SQ_URI_TAG

const std::string BamTools::Constants::SAM_SQ_URI_TAG = "UR"

## SAM_STAR

const char BamTools::Constants::SAM_STAR = '*'

## SAM_TAB

const char BamTools::Constants::SAM_TAB = '\t'

## Z_DEFAULT_MEM_LEVEL

const int8_t BamTools::Constants::Z_DEFAULT_MEM_LEVEL = 8