SamConstants.h File Reference

#include "api/api_global.h"
#include <string>

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Namespaces
namespace	BamTools
	Contains all BamTools classes & methods.
namespace	BamTools::Constants
	Provides basic constants for handling BAM files.
Variables
const char	BamTools::Constants::SAM_COLON = ':'
const char	BamTools::Constants::SAM_EQUAL = '='
const char	BamTools::Constants::SAM_PERIOD = '.'
const char	BamTools::Constants::SAM_STAR = '*'
const char	BamTools::Constants::SAM_TAB = '\t'
const std::string	BamTools::Constants::SAM_DIGITS = "0123456789"
const std::string	BamTools::Constants::SAM_CURRENT_VERSION = "1.4"
const std::string	BamTools::Constants::SAM_HD_BEGIN_TOKEN = "@HD"
const std::string	BamTools::Constants::SAM_HD_VERSION_TAG = "VN"
const std::string	BamTools::Constants::SAM_HD_SORTORDER_TAG = "SO"
const std::string	BamTools::Constants::SAM_HD_GROUPORDER_TAG = "GO"
const std::string	BamTools::Constants::SAM_SQ_BEGIN_TOKEN = "@SQ"
const std::string	BamTools::Constants::SAM_SQ_ASSEMBLYID_TAG = "AS"
const std::string	BamTools::Constants::SAM_SQ_CHECKSUM_TAG = "M5"
const std::string	BamTools::Constants::SAM_SQ_LENGTH_TAG = "LN"
const std::string	BamTools::Constants::SAM_SQ_NAME_TAG = "SN"
const std::string	BamTools::Constants::SAM_SQ_SPECIES_TAG = "SP"
const std::string	BamTools::Constants::SAM_SQ_URI_TAG = "UR"
const std::string	BamTools::Constants::SAM_RG_BEGIN_TOKEN = "@RG"
const std::string	BamTools::Constants::SAM_RG_DESCRIPTION_TAG = "DS"
const std::string	BamTools::Constants::SAM_RG_FLOWORDER_TAG = "FO"
const std::string	BamTools::Constants::SAM_RG_ID_TAG = "ID"
const std::string	BamTools::Constants::SAM_RG_KEYSEQUENCE_TAG = "KS"
const std::string	BamTools::Constants::SAM_RG_LIBRARY_TAG = "LB"
const std::string	BamTools::Constants::SAM_RG_PLATFORMUNIT_TAG = "PU"
const std::string	BamTools::Constants::SAM_RG_PREDICTEDINSERTSIZE_TAG = "PI"
const std::string	BamTools::Constants::SAM_RG_PRODUCTIONDATE_TAG = "DT"
const std::string	BamTools::Constants::SAM_RG_PROGRAM_TAG = "PG"
const std::string	BamTools::Constants::SAM_RG_SAMPLE_TAG = "SM"
const std::string	BamTools::Constants::SAM_RG_SEQCENTER_TAG = "CN"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_TAG = "PL"
const std::string	BamTools::Constants::SAM_PG_BEGIN_TOKEN = "@PG"
const std::string	BamTools::Constants::SAM_PG_COMMANDLINE_TAG = "CL"
const std::string	BamTools::Constants::SAM_PG_ID_TAG = "ID"
const std::string	BamTools::Constants::SAM_PG_NAME_TAG = "PN"
const std::string	BamTools::Constants::SAM_PG_PREVIOUSPROGRAM_TAG = "PP"
const std::string	BamTools::Constants::SAM_PG_VERSION_TAG = "VN"
const std::string	BamTools::Constants::SAM_CO_BEGIN_TOKEN = "@CO"
const std::string	BamTools::Constants::SAM_HD_SORTORDER_COORDINATE = "coordinate"
const std::string	BamTools::Constants::SAM_HD_SORTORDER_QUERYNAME = "queryname"
const std::string	BamTools::Constants::SAM_HD_SORTORDER_UNKNOWN = "unknown"
const std::string	BamTools::Constants::SAM_HD_SORTORDER_UNSORTED = "unsorted"
const std::string	BamTools::Constants::SAM_HD_GROUPORDER_NONE = "none"
const std::string	BamTools::Constants::SAM_HD_GROUPORDER_QUERY = "query"
const std::string	BamTools::Constants::SAM_HD_GROUPORDER_REFERENCE = "reference"
const unsigned int	BamTools::Constants::SAM_SQ_LENGTH_MIN = 1
const unsigned int	BamTools::Constants::SAM_SQ_LENGTH_MAX = 536870911
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_CAPILLARY = "CAPILLARY"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_HELICOS = "HELICOS"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_ILLUMINA = "ILLUMINA"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_IONTORRENT = "IONTORRENT"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_LS454 = "LS454"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_PACBIO = "PACBIO"
const std::string	BamTools::Constants::SAM_RG_SEQTECHNOLOGY_SOLID = "SOLID"