#include "utility_AMOS.hh"
#include <string>
#include <vector>
#include <iostream>
Include dependency graph for Message_AMOS.hh:
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Namespaces | |
namespace | AMOS |
Classes | |
class | AMOS::Message_t |
A generic AMOS message object for reading and writing data. More... | |
class | AMOS::IMessagable_t |
Interface for classes that can interpret messages. More... | |
Defines | |
#define | __Message_AMOS_HH 1 |
Variables | |
const char | E_ADD = 'A' |
const char | E_DELETE = 'D' |
const char | E_REPLACE = 'R' |
const NCode_t | F_NULL = Encode ("nul") |
const NCode_t | F_AHANG = Encode ("ahg") |
const NCode_t | F_ACTION = Encode ("act") |
const NCode_t | F_ADJACENCY = Encode ("adj") |
const NCode_t | F_BASEPOSITION = Encode ("bcp") |
const NCode_t | F_BHANG = Encode ("bhg") |
const NCode_t | F_BID = Encode ("bid") |
const NCode_t | F_CLEAR = Encode ("clr") |
const NCode_t | F_COMMENT = Encode ("com") |
const NCode_t | F_COUNT = Encode ("cnt") |
const NCode_t | F_EID = Encode ("eid") |
const NCode_t | F_EDGE = Encode ("edg") |
const NCode_t | F_FLAG = Encode ("flg") |
const NCode_t | F_FRAGMENT = Encode ("frg") |
const NCode_t | F_GAPS = Encode ("gap") |
const NCode_t | F_IID = Encode ("iid") |
const NCode_t | F_LIBRARY = Encode ("lib") |
const NCode_t | F_LINK = Encode ("lnk") |
const NCode_t | F_MAP = Encode ("map") |
const NCode_t | F_MEAN = Encode ("mea") |
const NCode_t | F_MEMBER = Encode ("mbr") |
const NCode_t | F_NODES = Encode ("nds") |
const NCode_t | F_OBJECT = Encode ("obj") |
const NCode_t | F_OFFSET = Encode ("off") |
const NCode_t | F_POSITION = Encode ("pos") |
const NCode_t | F_QUALITY = Encode ("qlt") |
const NCode_t | F_QUALITYCLEAR = Encode ("qcr") |
const NCode_t | F_READS = Encode ("rds") |
const NCode_t | F_SCORE = Encode ("scr") |
const NCode_t | F_SEQUENCE = Encode ("seq") |
const NCode_t | F_SD = Encode ("std") |
const NCode_t | F_SIZE = Encode ("sze") |
const NCode_t | F_SOURCE = Encode ("src") |
const NCode_t | F_STATUS = Encode ("sts") |
const NCode_t | F_TYPE = Encode ("typ") |
const NCode_t | F_VECTORCLEAR = Encode ("vcr") |
const NCode_t | M_NULL = Encode ("NUL") |
const NCode_t | M_UNIVERSAL = Encode ("UNV") |
const NCode_t | M_CONTIG = Encode ("CTG") |
const NCode_t | M_CONTIGEDGE = Encode ("CTE") |
const NCode_t | M_CONTIGLINK = Encode ("CTL") |
const NCode_t | M_DISTRIBUTION = Encode ("DST") |
const NCode_t | M_EDGE = Encode ("EDG") |
const NCode_t | M_FEATURE = Encode ("FEA") |
const NCode_t | M_FRAGMENT = Encode ("FRG") |
const NCode_t | M_GROUP = Encode ("GRP") |
const NCode_t | M_KMER = Encode ("KMR") |
const NCode_t | M_LAYOUT = Encode ("LAY") |
const NCode_t | M_LIBRARY = Encode ("LIB") |
const NCode_t | M_LINK = Encode ("LNK") |
const NCode_t | M_IDMAP = Encode ("MAP") |
const NCode_t | M_INDEX = Encode ("IDX") |
const NCode_t | M_OVERLAP = Encode ("OVL") |
const NCode_t | M_READ = Encode ("RED") |
const NCode_t | M_SCAFFOLD = Encode ("SCF") |
const NCode_t | M_SCAFFOLDEDGE = Encode ("SCE") |
const NCode_t | M_SCAFFOLDLINK = Encode ("SCL") |
const NCode_t | M_SEQUENCE = Encode ("SEQ") |
const NCode_t | M_TILE = Encode ("TLE") |
Definition in file Message_AMOS.hh.
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Definition at line 12 of file Message_AMOS.hh. |
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Definition at line 23 of file Message_AMOS.hh. |
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Definition at line 24 of file Message_AMOS.hh. |
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Definition at line 25 of file Message_AMOS.hh. |
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Definition at line 28 of file Message_AMOS.hh. |
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Definition at line 29 of file Message_AMOS.hh. Referenced by AMOS::Overlap_t::readMessage(), AMOS::Link_t::readMessage(), AMOS::Overlap_t::writeMessage(), and AMOS::Link_t::writeMessage(). |
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Definition at line 27 of file Message_AMOS.hh. Referenced by AMOS::Overlap_t::readMessage(), and AMOS::Overlap_t::writeMessage(). |
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Definition at line 30 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), and AMOS::Read_t::writeMessage(). |
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Definition at line 31 of file Message_AMOS.hh. Referenced by AMOS::Overlap_t::readMessage(), and AMOS::Overlap_t::writeMessage(). |
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Definition at line 32 of file Message_AMOS.hh. |
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Definition at line 33 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), AMOS::Feature_t::readMessage(), AMOS::Tile_t::readMessage(), AMOS::Read_t::writeMessage(), AMOS::Feature_t::writeMessage(), and AMOS::Tile_t::writeMessage(). |
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Definition at line 34 of file Message_AMOS.hh. Referenced by AMOS::Universal_t::readMessage(), and AMOS::Universal_t::writeMessage(). |
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Definition at line 35 of file Message_AMOS.hh. Referenced by AMOS::Kmer_t::readMessage(), and AMOS::Kmer_t::writeMessage(). |
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Definition at line 37 of file Message_AMOS.hh. Referenced by AMOS::Scaffold_t::readMessage(), and AMOS::Scaffold_t::writeMessage(). |
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Definition at line 36 of file Message_AMOS.hh. Referenced by AMOS::Universal_t::readMessage(), and AMOS::Universal_t::writeMessage(). |
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Definition at line 38 of file Message_AMOS.hh. Referenced by AMOS::Universal_t::readMessage(), AMOS::Overlap_t::readMessage(), AMOS::Universal_t::writeMessage(), and AMOS::Overlap_t::writeMessage(). |
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Definition at line 39 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), and AMOS::Read_t::writeMessage(). |
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Definition at line 40 of file Message_AMOS.hh. Referenced by AMOS::Tile_t::readMessage(), and AMOS::Tile_t::writeMessage(). |
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Definition at line 41 of file Message_AMOS.hh. Referenced by AMOS::Universal_t::readMessage(), and AMOS::Universal_t::writeMessage(). |
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Definition at line 42 of file Message_AMOS.hh. Referenced by AMOS::Fragment_t::readMessage(), and AMOS::Fragment_t::writeMessage(). |
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Definition at line 43 of file Message_AMOS.hh. Referenced by AMOS::IEdge_t::readMessage(), and AMOS::IEdge_t::writeMessage(). |
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Definition at line 44 of file Message_AMOS.hh. Referenced by AMOS::Index_t::readMessage(), AMOS::IDMap_t::readMessage(), AMOS::Index_t::writeMessage(), and AMOS::IDMap_t::writeMessage(). |
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Definition at line 45 of file Message_AMOS.hh. Referenced by AMOS::Distribution_t::readMessage(), and AMOS::Distribution_t::writeMessage(). |
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Definition at line 46 of file Message_AMOS.hh. Referenced by AMOS::Group_t::readMessage(), and AMOS::Group_t::writeMessage(). |
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Definition at line 47 of file Message_AMOS.hh. Referenced by AMOS::Link_t::readMessage(), and AMOS::Link_t::writeMessage(). |
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Definition at line 26 of file Message_AMOS.hh. |
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Definition at line 48 of file Message_AMOS.hh. Referenced by AMOS::Link_t::readMessage(), AMOS::Index_t::readMessage(), AMOS::IDMap_t::readMessage(), AMOS::Group_t::readMessage(), AMOS::Link_t::writeMessage(), AMOS::Index_t::writeMessage(), AMOS::IDMap_t::writeMessage(), and AMOS::Group_t::writeMessage(). |
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Definition at line 49 of file Message_AMOS.hh. Referenced by AMOS::Tile_t::readMessage(), and AMOS::Tile_t::writeMessage(). |
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Definition at line 50 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), and AMOS::Read_t::writeMessage(). |
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Definition at line 51 of file Message_AMOS.hh. Referenced by AMOS::Sequence_t::readMessage(), and AMOS::Sequence_t::writeMessage(). |
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Definition at line 52 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), and AMOS::Read_t::writeMessage(). |
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Definition at line 53 of file Message_AMOS.hh. Referenced by AMOS::Overlap_t::readMessage(), AMOS::Kmer_t::readMessage(), AMOS::Fragment_t::readMessage(), AMOS::Overlap_t::writeMessage(), AMOS::Kmer_t::writeMessage(), and AMOS::Fragment_t::writeMessage(). |
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Definition at line 54 of file Message_AMOS.hh. Referenced by AMOS::Overlap_t::readMessage(), and AMOS::Overlap_t::writeMessage(). |
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Definition at line 56 of file Message_AMOS.hh. Referenced by AMOS::Link_t::readMessage(), AMOS::Distribution_t::readMessage(), AMOS::Link_t::writeMessage(), and AMOS::Distribution_t::writeMessage(). |
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Definition at line 55 of file Message_AMOS.hh. Referenced by AMOS::Sequence_t::readMessage(), AMOS::Kmer_t::readMessage(), AMOS::Sequence_t::writeMessage(), and AMOS::Kmer_t::writeMessage(). |
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Definition at line 57 of file Message_AMOS.hh. Referenced by AMOS::Link_t::readMessage(), AMOS::Index_t::readMessage(), AMOS::IDMap_t::readMessage(), AMOS::Fragment_t::readMessage(), AMOS::Link_t::writeMessage(), AMOS::Index_t::writeMessage(), AMOS::IDMap_t::writeMessage(), and AMOS::Fragment_t::writeMessage(). |
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Definition at line 58 of file Message_AMOS.hh. Referenced by AMOS::Link_t::readMessage(), AMOS::Fragment_t::readMessage(), AMOS::Feature_t::readMessage(), AMOS::Tile_t::readMessage(), AMOS::Link_t::writeMessage(), AMOS::Fragment_t::writeMessage(), AMOS::Feature_t::writeMessage(), and AMOS::Tile_t::writeMessage(). |
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Definition at line 59 of file Message_AMOS.hh. Referenced by AMOS::Universal_t::readMessage(), and AMOS::Universal_t::writeMessage(). |
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Definition at line 60 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), AMOS::Link_t::readMessage(), AMOS::Fragment_t::readMessage(), AMOS::Feature_t::readMessage(), AMOS::Read_t::writeMessage(), AMOS::Link_t::writeMessage(), AMOS::Fragment_t::writeMessage(), and AMOS::Feature_t::writeMessage(). |
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Definition at line 61 of file Message_AMOS.hh. Referenced by AMOS::Read_t::readMessage(), and AMOS::Read_t::writeMessage(). |
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Definition at line 64 of file Message_AMOS.hh. |
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Definition at line 65 of file Message_AMOS.hh. |
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Definition at line 66 of file Message_AMOS.hh. |
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Definition at line 67 of file Message_AMOS.hh. Referenced by AMOS::Library_t::readMessage(). |
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Definition at line 68 of file Message_AMOS.hh. |
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Definition at line 69 of file Message_AMOS.hh. |
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Definition at line 70 of file Message_AMOS.hh. |
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Definition at line 71 of file Message_AMOS.hh. |
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Definition at line 77 of file Message_AMOS.hh. |
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Definition at line 72 of file Message_AMOS.hh. |
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Definition at line 74 of file Message_AMOS.hh. |
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Definition at line 75 of file Message_AMOS.hh. |
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Definition at line 62 of file Message_AMOS.hh. Referenced by AMOS::Message_t::clear(), and AMOS::Message_t::Message_t(). |
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Definition at line 78 of file Message_AMOS.hh. |
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Definition at line 79 of file Message_AMOS.hh. |
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Definition at line 80 of file Message_AMOS.hh. |
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Definition at line 81 of file Message_AMOS.hh. |
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Definition at line 82 of file Message_AMOS.hh. |
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Definition at line 83 of file Message_AMOS.hh. |
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Definition at line 84 of file Message_AMOS.hh. Referenced by AMOS::Scaffold_t::readMessage(), AMOS::Layout_t::readMessage(), and AMOS::Contig_t::readMessage(). |
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Definition at line 63 of file Message_AMOS.hh. |