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gnGBKSource.h File Reference

#include "gn/gnDefs.h"
#include <string>
#include <fstream>
#include <vector>
#include "gn/gnFileSource.h"
#include "gn/gnFileContig.h"
#include "gn/gnSourceSpec.h"
#include "gn/gnSequence.h"

Go to the source code of this file.

Compounds
class	gnGBKSource
	gnGBKSource is a GenBank sequence file reader. More...
Variables
const uint32	SEQ_COLUMN_WIDTH = 80
const uint32	SEQ_HEADER_NAME_LENGTH = 11
const uint32	SEQ_SUBTAG_COLUMN = 5
const uint32	SEQ_LOCUS_CIRCULAR_COLUMN = 43
const uint32	SEQ_LOCUS_NAME_COLUMN = 13
const uint32	SEQ_LOCUS_NAME_LENGTH = 10
const uint32	SEQ_LOCUS_SIZE_LENGTH = 7
const uint32	SEQ_LOCUS_DNATYPE_OFFSET = 33
const uint32	SEQ_LOCUS_DNATYPE_LENGTH = 7
const uint32	SEQ_LOCUS_DIVCODE_OFFSET = 52
const uint32	SEQ_LOCUS_DIVCODE_LENGTH = 3
const uint32	SEQ_LOCUS_DATE_OFFSET = 62
const uint32	SEQ_LOCUS_DATE_LENGTH = 11
const uint32	SEQ_FEATURE_LOC_OFFSET = 21
const uint32	SEQ_BASES_INDEX_END = 9

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Variable Documentation

const uint32 SEQ_BASES_INDEX_END = 9

Definition at line 40 of file gnGBKSource.h.

const uint32 SEQ_COLUMN_WIDTH = 80

Definition at line 26 of file gnGBKSource.h. Referenced by gnGBKSource::Write().

const uint32 SEQ_FEATURE_LOC_OFFSET = 21

Definition at line 39 of file gnGBKSource.h. Referenced by gnGBKSource::Write().

const uint32 SEQ_HEADER_NAME_LENGTH = 11

Definition at line 27 of file gnGBKSource.h. Referenced by gnSEQSource::ParseStream(), and gnGBKSource::ParseStream().

const uint32 SEQ_LOCUS_CIRCULAR_COLUMN = 43

Definition at line 29 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_DATE_LENGTH = 11

Definition at line 38 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_DATE_OFFSET = 62

Definition at line 37 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_DIVCODE_LENGTH = 3

Definition at line 36 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_DIVCODE_OFFSET = 52

Definition at line 35 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_DNATYPE_LENGTH = 7

Definition at line 34 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_DNATYPE_OFFSET = 33

Definition at line 33 of file gnGBKSource.h.

const uint32 SEQ_LOCUS_NAME_COLUMN = 13

Definition at line 30 of file gnGBKSource.h. Referenced by gnSEQSource::ParseStream(), and gnGBKSource::ParseStream().

const uint32 SEQ_LOCUS_NAME_LENGTH = 10

Definition at line 31 of file gnGBKSource.h. Referenced by gnSEQSource::ParseStream(), gnGBKSource::ParseStream(), and gnGBKSource::Write().

const uint32 SEQ_LOCUS_SIZE_LENGTH = 7

Definition at line 32 of file gnGBKSource.h. Referenced by gnGBKSource::Write().

const uint32 SEQ_SUBTAG_COLUMN = 5

Definition at line 28 of file gnGBKSource.h. Referenced by gnSEQSource::ParseStream(), gnGBKSource::ParseStream(), and gnGBKSource::Write().

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