keywords_item.cpp File Reference

#include <ncbi_pch.hpp>
#include <corelib/ncbistd.hpp>
#include <objects/seqblock/PIR_block.hpp>
#include <objects/seqblock/PRF_block.hpp>
#include <objects/seqblock/GB_block.hpp>
#include <objects/seqblock/SP_block.hpp>
#include <objects/seqblock/EMBL_block.hpp>
#include <objects/seq/MolInfo.hpp>
#include <objects/seqfeat/BioSource.hpp>
#include <objects/seqfeat/SubSource.hpp>
#include <objects/seqfeat/Org_ref.hpp>
#include <objects/seqfeat/OrgName.hpp>
#include <objects/seqfeat/OrgMod.hpp>
#include <objmgr/bioseq_ci.hpp>
#include <objmgr/seqdesc_ci.hpp>
#include <util/static_set.hpp>
#include <algorithm>
#include <objtools/format/formatter.hpp>
#include <objtools/format/text_ostream.hpp>
#include <objtools/format/items/keywords_item.hpp>
#include <objtools/format/context.hpp>
#include <objects/valid/Comment_set.hpp>
#include <objects/valid/Comment_rule.hpp>
#include <objects/misc/sequence_util_macros.hpp>

Include dependency graph for keywords_item.cpp:

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Typedefs
typedef CStaticArraySet< const char *, PCase_CStr >	TStaticKeywordSet

Enumerations
enum	ETechFlags { e_not_set , eEST , eSTS , eGSS }

Functions
	DEFINE_STATIC_ARRAY_MAP (TStaticKeywordSet, sc_EST_kw, sc_EST)
	DEFINE_STATIC_ARRAY_MAP (TStaticKeywordSet, sc_GSS_kw, sc_GSS)
	DEFINE_STATIC_ARRAY_MAP (TStaticKeywordSet, sc_STS_kw, sc_STS)
static bool	s_CheckSpecialKeyword (const string &keyword, ETechFlags tech)
static bool	x_OkayToAddKeyword (const string &keyword, vector< string > keywords)

Variables
static const char *const	sc_EST []
static const char *const	sc_GSS []
static const char *const	sc_STS []

Typedef Documentation

TStaticKeywordSet

typedef CStaticArraySet<const char*, PCase_CStr> TStaticKeywordSet

Definition at line 103 of file keywords_item.cpp.

Enumeration Type Documentation

ETechFlags

enum ETechFlags

Enumerator
e_not_set
eEST
eSTS
eGSS

Definition at line 88 of file keywords_item.cpp.

Function Documentation

DEFINE_STATIC_ARRAY_MAP() [1/3]

DEFINE_STATIC_ARRAY_MAP	(	TStaticKeywordSet	,
		sc_EST_kw	,
		sc_EST
	)

DEFINE_STATIC_ARRAY_MAP() [2/3]

DEFINE_STATIC_ARRAY_MAP	(	TStaticKeywordSet	,
		sc_GSS_kw	,
		sc_GSS
	)

DEFINE_STATIC_ARRAY_MAP() [3/3]

DEFINE_STATIC_ARRAY_MAP	(	TStaticKeywordSet	,
		sc_STS_kw	,
		sc_STS
	)

s_CheckSpecialKeyword()

static bool s_CheckSpecialKeyword ( const string &  keyword, ETechFlags  tech  )

static

Definition at line 121 of file keywords_item.cpp.

References eEST, eGSS, and eSTS.

Referenced by CKeywordsItem::x_GatherInfo().

x_OkayToAddKeyword()

static bool x_OkayToAddKeyword ( const string &  keyword, vector< string >  keywords  )

static

Definition at line 436 of file keywords_item.cpp.

References NStr::EqualNocase(), and ITERATE.

Referenced by CKeywordsItem::x_AddKeyword().

Variable Documentation

sc_EST

const char* const sc_EST[]

static

Initial value:

= {
  "EST", "EST (expressed sequence tag)", "EST PROTO((expressed sequence tag)",
  "EST(expressed sequence tag)", "TSR", "UK putts", "expressed sequence tag",
  "partial cDNA sequence", "putatively transcribed partial sequence",
  "transcribed sequence fragment"
}

Definition at line 97 of file keywords_item.cpp.

sc_GSS

const char* const sc_GSS[]

static

Initial value:

= {
  "GSS", "trapped exon"
}

Definition at line 108 of file keywords_item.cpp.

sc_STS

const char* const sc_STS[]

static

Initial value:

= {
  "STS", "STS (sequence tagged site)", "STS sequence",
  "STS(sequence tagged site)", "sequence tagged site"
}

Definition at line 114 of file keywords_item.cpp.