#include <ncbi_pch.hpp>
#include <objects/seqfeat/SeqFeatData.hpp>
#include <objects/seqfeat/RNA_ref.hpp>
#include <objects/seqfeat/Imp_feat.hpp>
#include <objects/seq/Pubdesc.hpp>
#include <objects/general/User_object.hpp>
#include <objects/seqfeat/Prot_ref.hpp>
#include <objects/seqfeat/Gb_qual.hpp>
#include <algorithm>
#include <util/static_map.hpp>
#include <cassert>

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Classes
struct	SImportEntry

struct	SSubtypeInfo

struct	SFeatListItem

Macros
#define	FEAT_INFO_PAIR(type, subtype, key_full, key_gb)

#define	PROT_INFO_PAIR(proc, subtype, key_full, key_gb)

#define	SITE_INFO_PAIR(site, subtype, key_full, key_gb)

#define	RNA_INFO_PAIR(rna, subtype, key_full, key_gb)

#define	SUBTYPE_INFO(type, subtype, value) { CSeqFeatData::type, CSeqFeatData::subtype, value, #subtype }

#define	ADD_XREF_PAIR(x, y) {CSeqFeatData::eSubtype_ ## x, CSeqFeatData::eSubtype_ ## y },

Typedefs
typedef SStaticPair< CSeqFeatData::E_Choice, CSeqFeatData::SFeatDataInfo >	TInfoPair

typedef CStaticPairArrayMap< CSeqFeatData::E_Choice, CSeqFeatData::SFeatDataInfo >	TInfoMap

typedef SStaticPair< CProt_ref::EProcessed, CSeqFeatData::SFeatDataInfo >	TProtInfoPair

typedef CStaticPairArrayMap< CProt_ref::EProcessed, CSeqFeatData::SFeatDataInfo >	TProtInfoMap

typedef SStaticPair< CSeqFeatData::ESite, CSeqFeatData::SFeatDataInfo >	TSiteInfoPair

typedef CStaticPairArrayMap< CSeqFeatData::ESite, CSeqFeatData::SFeatDataInfo >	TSiteInfoMap

typedef SStaticPair< CRNA_ref::EType, CSeqFeatData::SFeatDataInfo >	TRnaInfoPair

typedef CStaticPairArrayMap< CRNA_ref::EType, CSeqFeatData::SFeatDataInfo >	TRnaInfoMap

typedef vector< CSeqFeatData::E_Choice >	TSubtypesTable

Functions
	DEFINE_STATIC_ARRAY_MAP (TInfoMap, sc_InfoPairs, kInfoPairs)

	DEFINE_STATIC_ARRAY_MAP (TProtInfoMap, sc_ProtInfoPairs, kProtInfoPairs)

	DEFINE_STATIC_ARRAY_MAP (TSiteInfoMap, sc_SiteInfoPairs, kSiteInfoPairs)

	DEFINE_STATIC_ARRAY_MAP (TRnaInfoMap, sc_RnaInfoPairs, kRnaInfoPairs)

	DEFINE_STATIC_MUTEX (sx_InitTablesMutex)

	MAKE_TWOWAY_CONST_MAP (sm_FeatKeys, ct::tagStrNocase, CSeqFeatData::ESubtype, { { "-10_signal", CSeqFeatData::eSubtype_10_signal }, { "-35_signal", CSeqFeatData::eSubtype_35_signal }, { "3'UTR", CSeqFeatData::eSubtype_3UTR }, { "3'clip", CSeqFeatData::eSubtype_3clip }, { "5'UTR", CSeqFeatData::eSubtype_5UTR }, { "5'clip", CSeqFeatData::eSubtype_5clip }, { "Bond", CSeqFeatData::eSubtype_bond }, { "CAAT_signal", CSeqFeatData::eSubtype_CAAT_signal }, { "CDS", CSeqFeatData::eSubtype_cdregion }, { "C_region", CSeqFeatData::eSubtype_C_region }, { "Cit", CSeqFeatData::eSubtype_pub }, { "CloneRef", CSeqFeatData::eSubtype_clone }, { "Comment", CSeqFeatData::eSubtype_comment }, { "D-loop", CSeqFeatData::eSubtype_D_loop }, { "D_segment", CSeqFeatData::eSubtype_D_segment }, { "GC_signal", CSeqFeatData::eSubtype_GC_signal }, { "Het", CSeqFeatData::eSubtype_het }, { "J_segment", CSeqFeatData::eSubtype_J_segment }, { "LTR", CSeqFeatData::eSubtype_LTR }, { "N_region", CSeqFeatData::eSubtype_N_region }, { "NonStdRes", CSeqFeatData::eSubtype_non_std_residue }, { "Num", CSeqFeatData::eSubtype_num }, { "Protein", CSeqFeatData::eSubtype_prot }, { "RBS", CSeqFeatData::eSubtype_RBS }, { "REFERENCE", CSeqFeatData::eSubtype_pub }, { "Region", CSeqFeatData::eSubtype_region }, { "Rsite", CSeqFeatData::eSubtype_rsite }, { "STS", CSeqFeatData::eSubtype_STS }, { "S_region", CSeqFeatData::eSubtype_S_region }, { "SecStr", CSeqFeatData::eSubtype_psec_str }, { "Site", CSeqFeatData::eSubtype_site }, { "Site-ref", CSeqFeatData::eSubtype_site_ref }, { "Src", CSeqFeatData::eSubtype_biosrc }, { "TATA_signal", CSeqFeatData::eSubtype_TATA_signal }, { "TxInit", CSeqFeatData::eSubtype_txinit }, { "User", CSeqFeatData::eSubtype_user }, { "V_region", CSeqFeatData::eSubtype_V_region }, { "V_segment", CSeqFeatData::eSubtype_V_segment }, { "VariationRef", CSeqFeatData::eSubtype_variation_ref }, { "Xref", CSeqFeatData::eSubtype_seq }, { "assembly_gap", CSeqFeatData::eSubtype_assembly_gap }, { "attenuator", CSeqFeatData::eSubtype_attenuator }, { "centromere", CSeqFeatData::eSubtype_centromere }, { "conflict", CSeqFeatData::eSubtype_conflict }, { "enhancer", CSeqFeatData::eSubtype_enhancer }, { "exon", CSeqFeatData::eSubtype_exon }, { "gap", CSeqFeatData::eSubtype_gap }, { "gene", CSeqFeatData::eSubtype_gene }, { "iDNA", CSeqFeatData::eSubtype_iDNA }, { "intron", CSeqFeatData::eSubtype_intron }, { "mRNA", CSeqFeatData::eSubtype_mRNA }, { "mat_peptide", CSeqFeatData::eSubtype_mat_peptide_aa }, { "mat_peptide_nt", CSeqFeatData::eSubtype_mat_peptide }, { "misc_RNA", CSeqFeatData::eSubtype_otherRNA }, { "misc_binding", CSeqFeatData::eSubtype_misc_binding }, { "misc_difference", CSeqFeatData::eSubtype_misc_difference }, { "misc_feature", CSeqFeatData::eSubtype_misc_feature }, { "misc_recomb", CSeqFeatData::eSubtype_misc_recomb }, { "misc_signal", CSeqFeatData::eSubtype_misc_signal }, { "misc_structure", CSeqFeatData::eSubtype_misc_structure }, { "mobile_element", CSeqFeatData::eSubtype_mobile_element }, { "modified_base", CSeqFeatData::eSubtype_modified_base }, { "ncRNA", CSeqFeatData::eSubtype_ncRNA }, { "old_sequence", CSeqFeatData::eSubtype_old_sequence }, { "operon", CSeqFeatData::eSubtype_operon }, { "oriT", CSeqFeatData::eSubtype_oriT }, { "polyA_signal", CSeqFeatData::eSubtype_polyA_signal }, { "polyA_site", CSeqFeatData::eSubtype_polyA_site }, { "precursor_RNA", CSeqFeatData::eSubtype_preRNA }, { "prim_transcript", CSeqFeatData::eSubtype_prim_transcript }, { "primer_bind", CSeqFeatData::eSubtype_primer_bind }, { "promoter", CSeqFeatData::eSubtype_promoter }, { "propeptide", CSeqFeatData::eSubtype_propeptide_aa }, { "propeptide_nt", CSeqFeatData::eSubtype_propeptide }, { "proprotein", CSeqFeatData::eSubtype_preprotein }, { "protein_bind", CSeqFeatData::eSubtype_protein_bind }, { "rRNA", CSeqFeatData::eSubtype_rRNA }, { "regulatory", CSeqFeatData::eSubtype_regulatory }, { "rep_origin", CSeqFeatData::eSubtype_rep_origin }, { "repeat_region", CSeqFeatData::eSubtype_repeat_region }, { "repeat_unit", CSeqFeatData::eSubtype_repeat_unit }, { "satellite", CSeqFeatData::eSubtype_satellite }, { "scRNA", CSeqFeatData::eSubtype_scRNA }, { "sig_peptide", CSeqFeatData::eSubtype_sig_peptide_aa }, { "sig_peptide_nt", CSeqFeatData::eSubtype_sig_peptide }, { "snRNA", CSeqFeatData::eSubtype_snRNA }, { "snoRNA", CSeqFeatData::eSubtype_snoRNA }, { "source", CSeqFeatData::eSubtype_biosrc }, { "stem_loop", CSeqFeatData::eSubtype_stem_loop }, { "tRNA", CSeqFeatData::eSubtype_tRNA }, { "telomere", CSeqFeatData::eSubtype_telomere }, { "terminator", CSeqFeatData::eSubtype_terminator }, { "tmRNA", CSeqFeatData::eSubtype_tmRNA }, { "transit_peptide", CSeqFeatData::eSubtype_transit_peptide_aa }, { "transit_peptide_nt", CSeqFeatData::eSubtype_transit_peptide }, { "unsure", CSeqFeatData::eSubtype_unsure }, { "variation", CSeqFeatData::eSubtype_variation }, { "virion", CSeqFeatData::eSubtype_virion } }) CSeqFeatData

	MAKE_TWOWAY_CONST_MAP (sc_QualPairs, CSeqFeatData::EQualifier, ct::tagStrNocase, { { CSeqFeatData::eQual_bad, "bad" }, { CSeqFeatData::eQual_allele, "allele" }, { CSeqFeatData::eQual_altitude, "altitude" }, { CSeqFeatData::eQual_anticodon, "anticodon" }, { CSeqFeatData::eQual_artificial_location, "artificial_location" }, { CSeqFeatData::eQual_bio_material, "bio_material" }, { CSeqFeatData::eQual_bond_type, "bond_type" }, { CSeqFeatData::eQual_bound_moiety, "bound_moiety" }, { CSeqFeatData::eQual_calculated_mol_wt, "calculated_mol_wt" }, { CSeqFeatData::eQual_cell_line, "cell_line" }, { CSeqFeatData::eQual_cell_type, "cell_type" }, { CSeqFeatData::eQual_chloroplast, "chloroplast" }, { CSeqFeatData::eQual_chromoplast, "chromoplast" }, { CSeqFeatData::eQual_chromosome, "chromosome" }, { CSeqFeatData::eQual_citation, "citation" }, { CSeqFeatData::eQual_clone, "clone" }, { CSeqFeatData::eQual_clone_lib, "clone_lib" }, { CSeqFeatData::eQual_coded_by, "coded_by" }, { CSeqFeatData::eQual_codon, "codon" }, { CSeqFeatData::eQual_codon_start, "codon_start" }, { CSeqFeatData::eQual_collected_by, "collected_by" }, { CSeqFeatData::eQual_collection_date, "collection_date" }, { CSeqFeatData::eQual_compare, "compare" }, { CSeqFeatData::eQual_cons_splice, "cons_splice" }, { CSeqFeatData::eQual_country, "country" }, { CSeqFeatData::eQual_cultivar, "cultivar" }, { CSeqFeatData::eQual_culture_collection, "culture_collection" }, { CSeqFeatData::eQual_cyanelle, "cyanelle" }, { CSeqFeatData::eQual_db_xref, "db_xref" }, { CSeqFeatData::eQual_derived_from, "derived_from" }, { CSeqFeatData::eQual_dev_stage, "dev_stage" }, { CSeqFeatData::eQual_direction, "direction" }, { CSeqFeatData::eQual_EC_number, "EC_number" }, { CSeqFeatData::eQual_ecotype, "ecotype" }, { CSeqFeatData::eQual_environmental_sample, "environmental_sample" }, { CSeqFeatData::eQual_estimated_length, "estimated_length" }, { CSeqFeatData::eQual_evidence, "evidence" }, { CSeqFeatData::eQual_exception, "exception" }, { CSeqFeatData::eQual_experiment, "experiment" }, { CSeqFeatData::eQual_feat_class, "feat_class" }, { CSeqFeatData::eQual_focus, "focus" }, { CSeqFeatData::eQual_frequency, "frequency" }, { CSeqFeatData::eQual_function, "function" }, { CSeqFeatData::eQual_gap_type, "gap_type" }, { CSeqFeatData::eQual_gdb_xref, "gdb_xref" }, { CSeqFeatData::eQual_gene, "gene" }, { CSeqFeatData::eQual_gene_synonym, "gene_synonym" }, { CSeqFeatData::eQual_germline, "germline" }, { CSeqFeatData::eQual_haplogroup, "haplogroup" }, { CSeqFeatData::eQual_haplotype, "haplotype" }, { CSeqFeatData::eQual_heterogen, "heterogen" }, { CSeqFeatData::eQual_host, "specific_host" }, { CSeqFeatData::eQual_host, "host" }, { CSeqFeatData::eQual_identified_by, "identified_by" }, { CSeqFeatData::eQual_inference, "inference" }, { CSeqFeatData::eQual_insertion_seq, "insertion_seq" }, { CSeqFeatData::eQual_isolate, "isolate" }, { CSeqFeatData::eQual_isolation_source, "isolation_source" }, { CSeqFeatData::eQual_kinetoplast, "kinetoplast" }, { CSeqFeatData::eQual_lab_host, "lab_host" }, { CSeqFeatData::eQual_label, "label" }, { CSeqFeatData::eQual_lat_lon, "lat_lon" }, { CSeqFeatData::eQual_linkage_evidence, "linkage_evidence" }, { CSeqFeatData::eQual_linkage_group, "linkage_group" }, { CSeqFeatData::eQual_locus_tag, "locus_tag" }, { CSeqFeatData::eQual_macronuclear, "macronuclear" }, { CSeqFeatData::eQual_map, "map" }, { CSeqFeatData::eQual_mating_type, "mating_type" }, { CSeqFeatData::eQual_metagenome_source, "metagenome_source" }, { CSeqFeatData::eQual_metagenomic, "metagenomic" }, { CSeqFeatData::eQual_mitochondrion, "mitochondrion" }, { CSeqFeatData::eQual_mobile_element, "mobile_element" }, { CSeqFeatData::eQual_mobile_element_type, "mobile_element_type" }, { CSeqFeatData::eQual_mod_base, "mod_base" }, { CSeqFeatData::eQual_mol_type, "mol_type" }, { CSeqFeatData::eQual_name, "name" }, { CSeqFeatData::eQual_nomenclature, "nomenclature" }, { CSeqFeatData::eQual_non_std_residue, "non_std_residue" }, { CSeqFeatData::eQual_ncRNA_class, "ncRNA_class" }, { CSeqFeatData::eQual_note, "note" }, { CSeqFeatData::eQual_number, "number" }, { CSeqFeatData::eQual_old_locus_tag, "old_locus_tag" }, { CSeqFeatData::eQual_operon, "operon" }, { CSeqFeatData::eQual_organelle, "organelle" }, { CSeqFeatData::eQual_organism, "organism" }, { CSeqFeatData::eQual_partial, "partial" }, { CSeqFeatData::eQual_PCR_conditions, "PCR_conditions" }, { CSeqFeatData::eQual_PCR_primers, "PCR_primers" }, { CSeqFeatData::eQual_phenotype, "phenotype" }, { CSeqFeatData::eQual_plasmid, "plasmid" }, { CSeqFeatData::eQual_pop_variant, "pop_variant" }, { CSeqFeatData::eQual_product, "product" }, { CSeqFeatData::eQual_protein_id, "protein_id" }, { CSeqFeatData::eQual_proviral, "proviral" }, { CSeqFeatData::eQual_pseudo, "pseudo" }, { CSeqFeatData::eQual_pseudogene, "pseudogene" }, { CSeqFeatData::eQual_rearranged, "rearranged" }, { CSeqFeatData::eQual_recombination_class, "recombination_class" }, { CSeqFeatData::eQual_region_name, "region_name" }, { CSeqFeatData::eQual_regulatory_class, "regulatory_class" }, { CSeqFeatData::eQual_replace, "replace" }, { CSeqFeatData::eQual_ribosomal_slippage, "ribosomal_slippage" }, { CSeqFeatData::eQual_rpt_family, "rpt_family" }, { CSeqFeatData::eQual_rpt_type, "rpt_type" }, { CSeqFeatData::eQual_rpt_unit, "rpt_unit" }, { CSeqFeatData::eQual_rpt_unit_range, "rpt_unit_range" }, { CSeqFeatData::eQual_rpt_unit_seq, "rpt_unit_seq" }, { CSeqFeatData::eQual_satellite, "satellite" }, { CSeqFeatData::eQual_sec_str_type, "sec_str_type" }, { CSeqFeatData::eQual_segment, "segment" }, { CSeqFeatData::eQual_sequenced_mol, "sequenced_mol" }, { CSeqFeatData::eQual_serotype, "serotype" }, { CSeqFeatData::eQual_serovar, "serovar" }, { CSeqFeatData::eQual_sex, "sex" }, { CSeqFeatData::eQual_site_type, "site_type" }, { CSeqFeatData::eQual_SO_type, "SO_type" }, { CSeqFeatData::eQual_specimen_voucher, "specimen_voucher" }, { CSeqFeatData::eQual_standard_name, "standard_name" }, { CSeqFeatData::eQual_strain, "strain" }, { CSeqFeatData::eQual_submitter_seqid, "submitter_seqid" }, { CSeqFeatData::eQual_sub_clone, "sub_clone" }, { CSeqFeatData::eQual_sub_species, "sub_species" }, { CSeqFeatData::eQual_sub_strain, "sub_strain" }, { CSeqFeatData::eQual_tag_peptide, "tag_peptide" }, { CSeqFeatData::eQual_tissue_lib, "tissue_lib" }, { CSeqFeatData::eQual_tissue_type, "tissue_type" }, { CSeqFeatData::eQual_trans_splicing, "trans_splicing" }, { CSeqFeatData::eQual_transcript_id, "transcript_id" }, { CSeqFeatData::eQual_transgenic, "transgenic" }, { CSeqFeatData::eQual_translation, "translation" }, { CSeqFeatData::eQual_transl_except, "transl_except" }, { CSeqFeatData::eQual_transl_table, "transl_table" }, { CSeqFeatData::eQual_transposon, "transposon" }, { CSeqFeatData::eQual_type_material, "type_material" }, { CSeqFeatData::eQual_UniProtKB_evidence, "UniProtKB_evidence" }, { CSeqFeatData::eQual_usedin, "usedin" }, { CSeqFeatData::eQual_variety, "variety" }, { CSeqFeatData::eQual_virion, "virion" }, { CSeqFeatData::eQual_whole_replicon, "whole_replicon" } }) CTempString CSeqFeatData

string	x_SpaceToDash (string str1)

	DEFINE_CLASS_STATIC_ARRAY_MAP (CBondList::TBondMap, CBondList::sm_BondKeys, bond_key_to_subtype)

	DEFINE_CLASS_STATIC_ARRAY_MAP (CSiteList::TSiteMap, CSiteList::sm_SiteKeys, site_key_to_subtype)

Variables
static const SImportEntry	kImportTable []

static const SImportEntry *const	kImportTableEnd = kImportTable + sizeof(kImportTable)/sizeof(kImportTable[0])

static const TInfoPair	kInfoPairs []

static const TProtInfoPair	kProtInfoPairs []

static const TSiteInfoPair	kSiteInfoPairs []

static const TRnaInfoPair	kRnaInfoPairs []

static CSafeStatic< TSubtypesTable >	sx_SubtypesTable

static atomic< bool >	sx_SubtypesTableInitialized

static const SSubtypeInfo	s_subtype_info []

static const size_t	s_subtype_count

static const SFeatListItem	sc_ConfigItemInit []

static const CBondList::TBondKey	bond_key_to_subtype []

static const CSiteList::TSiteKey	site_key_to_subtype []

Macro Definition Documentation

◆ ADD_XREF_PAIR

#define ADD_XREF_PAIR	(	x,
		y
	)	{CSeqFeatData::eSubtype_ ## x, CSeqFeatData::eSubtype_ ## y },

Definition at line 3193 of file SeqFeatData.cpp.

◆ FEAT_INFO_PAIR

#define FEAT_INFO_PAIR	(	type,
		subtype,
		key_full,
		key_gb
	)

Value:

{ CSeqFeatData::e_##type, \

{ CSeqFeatData::eSubtype_##subtype, key_full, key_gb } }

type

static int type

Definition: getdata.c:31

Definition at line 154 of file SeqFeatData.cpp.

◆ PROT_INFO_PAIR

#define PROT_INFO_PAIR	(	proc,
		subtype,
		key_full,
		key_gb
	)

Value:

{ CProt_ref::eProcessed_##proc, \

{ CSeqFeatData::eSubtype_##subtype, key_full, key_gb } }

proc

static const char * proc

Definition: stats.c:21

Definition at line 187 of file SeqFeatData.cpp.

◆ RNA_INFO_PAIR

#define RNA_INFO_PAIR	(	rna,
		subtype,
		key_full,
		key_gb
	)

Value:

{ CRNA_ref::eType_##rna, \

{ CSeqFeatData::eSubtype_##subtype, key_full, key_gb } }

eFlatFileCodes::rna

@ rna

Definition at line 229 of file SeqFeatData.cpp.

◆ SITE_INFO_PAIR

#define SITE_INFO_PAIR	(	site,
		subtype,
		key_full,
		key_gb
	)

Value:

{ CSeqFeatData::eSite_##site, \

{ CSeqFeatData::eSubtype_##subtype, key_full, key_gb } }

site

ESERV_Site site

Definition: ncbi_server_info.c:106

Definition at line 207 of file SeqFeatData.cpp.

◆ SUBTYPE_INFO

#define SUBTYPE_INFO	(	type,
		subtype,
		value
	)	{ CSeqFeatData::type, CSeqFeatData::subtype, value, #subtype }

Definition at line 580 of file SeqFeatData.cpp.

Typedef Documentation

◆ TInfoMap

typedef CStaticPairArrayMap<CSeqFeatData::E_Choice, CSeqFeatData::SFeatDataInfo> TInfoMap

Definition at line 180 of file SeqFeatData.cpp.

◆ TInfoPair

typedef SStaticPair<CSeqFeatData::E_Choice, CSeqFeatData::SFeatDataInfo> TInfoPair

Definition at line 152 of file SeqFeatData.cpp.

◆ TProtInfoMap

typedef CStaticPairArrayMap<CProt_ref::EProcessed, CSeqFeatData::SFeatDataInfo> TProtInfoMap

Definition at line 200 of file SeqFeatData.cpp.

◆ TProtInfoPair

typedef SStaticPair<CProt_ref::EProcessed, CSeqFeatData::SFeatDataInfo> TProtInfoPair

Definition at line 185 of file SeqFeatData.cpp.

◆ TRnaInfoMap

typedef CStaticPairArrayMap<CRNA_ref::EType, CSeqFeatData::SFeatDataInfo> TRnaInfoMap

Definition at line 246 of file SeqFeatData.cpp.

◆ TRnaInfoPair

typedef SStaticPair<CRNA_ref::EType, CSeqFeatData::SFeatDataInfo> TRnaInfoPair

Definition at line 227 of file SeqFeatData.cpp.

◆ TSiteInfoMap

typedef CStaticPairArrayMap<CSeqFeatData::ESite, CSeqFeatData::SFeatDataInfo> TSiteInfoMap

Definition at line 222 of file SeqFeatData.cpp.

◆ TSiteInfoPair

typedef SStaticPair<CSeqFeatData::ESite, CSeqFeatData::SFeatDataInfo> TSiteInfoPair

Definition at line 205 of file SeqFeatData.cpp.

◆ TSubtypesTable

typedef vector<CSeqFeatData::E_Choice> TSubtypesTable

Definition at line 387 of file SeqFeatData.cpp.

Function Documentation

◆ DEFINE_CLASS_STATIC_ARRAY_MAP() [1/2]

DEFINE_CLASS_STATIC_ARRAY_MAP	(	CBondList::TBondMap	,
		CBondList::sm_BondKeys	,
		bond_key_to_subtype
	)

◆ DEFINE_CLASS_STATIC_ARRAY_MAP() [2/2]

DEFINE_CLASS_STATIC_ARRAY_MAP	(	CSiteList::TSiteMap	,
		CSiteList::sm_SiteKeys	,
		site_key_to_subtype
	)

◆ DEFINE_STATIC_ARRAY_MAP() [1/4]

DEFINE_STATIC_ARRAY_MAP	(	TInfoMap	,
		sc_InfoPairs	,
		kInfoPairs
	)

◆ DEFINE_STATIC_ARRAY_MAP() [2/4]

DEFINE_STATIC_ARRAY_MAP	(	TProtInfoMap	,
		sc_ProtInfoPairs	,
		kProtInfoPairs
	)

◆ DEFINE_STATIC_ARRAY_MAP() [3/4]

DEFINE_STATIC_ARRAY_MAP	(	TRnaInfoMap	,
		sc_RnaInfoPairs	,
		kRnaInfoPairs
	)

◆ DEFINE_STATIC_ARRAY_MAP() [4/4]

DEFINE_STATIC_ARRAY_MAP	(	TSiteInfoMap	,
		sc_SiteInfoPairs	,
		kSiteInfoPairs
	)

◆ DEFINE_STATIC_MUTEX()

DEFINE_STATIC_MUTEX ( sx_InitTablesMutex )

Referenced by CSeqFeatData::GetBondList(), CSeqFeatData::GetFeatList(), and CSeqFeatData::GetSiteList().

◆ MAKE_TWOWAY_CONST_MAP() [1/2]

MAKE_TWOWAY_CONST_MAP	(	sc_QualPairs	,
		CSeqFeatData::EQualifier	,
		ct::tagStrNocase	,
		{ { CSeqFeatData::eQual_bad, "bad" }, { CSeqFeatData::eQual_allele, "allele" }, { CSeqFeatData::eQual_altitude, "altitude" }, { CSeqFeatData::eQual_anticodon, "anticodon" }, { CSeqFeatData::eQual_artificial_location, "artificial_location" }, { CSeqFeatData::eQual_bio_material, "bio_material" }, { CSeqFeatData::eQual_bond_type, "bond_type" }, { CSeqFeatData::eQual_bound_moiety, "bound_moiety" }, { CSeqFeatData::eQual_calculated_mol_wt, "calculated_mol_wt" }, { CSeqFeatData::eQual_cell_line, "cell_line" }, { CSeqFeatData::eQual_cell_type, "cell_type" }, { CSeqFeatData::eQual_chloroplast, "chloroplast" }, { CSeqFeatData::eQual_chromoplast, "chromoplast" }, { CSeqFeatData::eQual_chromosome, "chromosome" }, { CSeqFeatData::eQual_citation, "citation" }, { CSeqFeatData::eQual_clone, "clone" }, { CSeqFeatData::eQual_clone_lib, "clone_lib" }, { CSeqFeatData::eQual_coded_by, "coded_by" }, { CSeqFeatData::eQual_codon, "codon" }, { CSeqFeatData::eQual_codon_start, "codon_start" }, { CSeqFeatData::eQual_collected_by, "collected_by" }, { CSeqFeatData::eQual_collection_date, "collection_date" }, { CSeqFeatData::eQual_compare, "compare" }, { CSeqFeatData::eQual_cons_splice, "cons_splice" }, { CSeqFeatData::eQual_country, "country" }, { CSeqFeatData::eQual_cultivar, "cultivar" }, { CSeqFeatData::eQual_culture_collection, "culture_collection" }, { CSeqFeatData::eQual_cyanelle, "cyanelle" }, { CSeqFeatData::eQual_db_xref, "db_xref" }, { CSeqFeatData::eQual_derived_from, "derived_from" }, { CSeqFeatData::eQual_dev_stage, "dev_stage" }, { CSeqFeatData::eQual_direction, "direction" }, { CSeqFeatData::eQual_EC_number, "EC_number" }, { CSeqFeatData::eQual_ecotype, "ecotype" }, { CSeqFeatData::eQual_environmental_sample, "environmental_sample" }, { CSeqFeatData::eQual_estimated_length, "estimated_length" }, { CSeqFeatData::eQual_evidence, "evidence" }, { CSeqFeatData::eQual_exception, "exception" }, { CSeqFeatData::eQual_experiment, "experiment" }, { CSeqFeatData::eQual_feat_class, "feat_class" }, { CSeqFeatData::eQual_focus, "focus" }, { CSeqFeatData::eQual_frequency, "frequency" }, { CSeqFeatData::eQual_function, "function" }, { CSeqFeatData::eQual_gap_type, "gap_type" }, { CSeqFeatData::eQual_gdb_xref, "gdb_xref" }, { CSeqFeatData::eQual_gene, "gene" }, { CSeqFeatData::eQual_gene_synonym, "gene_synonym" }, { CSeqFeatData::eQual_germline, "germline" }, { CSeqFeatData::eQual_haplogroup, "haplogroup" }, { CSeqFeatData::eQual_haplotype, "haplotype" }, { CSeqFeatData::eQual_heterogen, "heterogen" }, { CSeqFeatData::eQual_host, "specific_host" }, { CSeqFeatData::eQual_host, "host" }, { CSeqFeatData::eQual_identified_by, "identified_by" }, { CSeqFeatData::eQual_inference, "inference" }, { CSeqFeatData::eQual_insertion_seq, "insertion_seq" }, { CSeqFeatData::eQual_isolate, "isolate" }, { CSeqFeatData::eQual_isolation_source, "isolation_source" }, { CSeqFeatData::eQual_kinetoplast, "kinetoplast" }, { CSeqFeatData::eQual_lab_host, "lab_host" }, { CSeqFeatData::eQual_label, "label" }, { CSeqFeatData::eQual_lat_lon, "lat_lon" }, { CSeqFeatData::eQual_linkage_evidence, "linkage_evidence" }, { CSeqFeatData::eQual_linkage_group, "linkage_group" }, { CSeqFeatData::eQual_locus_tag, "locus_tag" }, { CSeqFeatData::eQual_macronuclear, "macronuclear" }, { CSeqFeatData::eQual_map, "map" }, { CSeqFeatData::eQual_mating_type, "mating_type" }, { CSeqFeatData::eQual_metagenome_source, "metagenome_source" }, { CSeqFeatData::eQual_metagenomic, "metagenomic" }, { CSeqFeatData::eQual_mitochondrion, "mitochondrion" }, { CSeqFeatData::eQual_mobile_element, "mobile_element" }, { CSeqFeatData::eQual_mobile_element_type, "mobile_element_type" }, { CSeqFeatData::eQual_mod_base, "mod_base" }, { CSeqFeatData::eQual_mol_type, "mol_type" }, { CSeqFeatData::eQual_name, "name" }, { CSeqFeatData::eQual_nomenclature, "nomenclature" }, { CSeqFeatData::eQual_non_std_residue, "non_std_residue" }, { CSeqFeatData::eQual_ncRNA_class, "ncRNA_class" }, { CSeqFeatData::eQual_note, "note" }, { CSeqFeatData::eQual_number, "number" }, { CSeqFeatData::eQual_old_locus_tag, "old_locus_tag" }, { CSeqFeatData::eQual_operon, "operon" }, { CSeqFeatData::eQual_organelle, "organelle" }, { CSeqFeatData::eQual_organism, "organism" }, { CSeqFeatData::eQual_partial, "partial" }, { CSeqFeatData::eQual_PCR_conditions, "PCR_conditions" }, { CSeqFeatData::eQual_PCR_primers, "PCR_primers" }, { CSeqFeatData::eQual_phenotype, "phenotype" }, { CSeqFeatData::eQual_plasmid, "plasmid" }, { CSeqFeatData::eQual_pop_variant, "pop_variant" }, { CSeqFeatData::eQual_product, "product" }, { CSeqFeatData::eQual_protein_id, "protein_id" }, { CSeqFeatData::eQual_proviral, "proviral" }, { CSeqFeatData::eQual_pseudo, "pseudo" }, { CSeqFeatData::eQual_pseudogene, "pseudogene" }, { CSeqFeatData::eQual_rearranged, "rearranged" }, { CSeqFeatData::eQual_recombination_class, "recombination_class" }, { CSeqFeatData::eQual_region_name, "region_name" }, { CSeqFeatData::eQual_regulatory_class, "regulatory_class" }, { CSeqFeatData::eQual_replace, "replace" }, { CSeqFeatData::eQual_ribosomal_slippage, "ribosomal_slippage" }, { CSeqFeatData::eQual_rpt_family, "rpt_family" }, { CSeqFeatData::eQual_rpt_type, "rpt_type" }, { CSeqFeatData::eQual_rpt_unit, "rpt_unit" }, { CSeqFeatData::eQual_rpt_unit_range, "rpt_unit_range" }, { CSeqFeatData::eQual_rpt_unit_seq, "rpt_unit_seq" }, { CSeqFeatData::eQual_satellite, "satellite" }, { CSeqFeatData::eQual_sec_str_type, "sec_str_type" }, { CSeqFeatData::eQual_segment, "segment" }, { CSeqFeatData::eQual_sequenced_mol, "sequenced_mol" }, { CSeqFeatData::eQual_serotype, "serotype" }, { CSeqFeatData::eQual_serovar, "serovar" }, { CSeqFeatData::eQual_sex, "sex" }, { CSeqFeatData::eQual_site_type, "site_type" }, { CSeqFeatData::eQual_SO_type, "SO_type" }, { CSeqFeatData::eQual_specimen_voucher, "specimen_voucher" }, { CSeqFeatData::eQual_standard_name, "standard_name" }, { CSeqFeatData::eQual_strain, "strain" }, { CSeqFeatData::eQual_submitter_seqid, "submitter_seqid" }, { CSeqFeatData::eQual_sub_clone, "sub_clone" }, { CSeqFeatData::eQual_sub_species, "sub_species" }, { CSeqFeatData::eQual_sub_strain, "sub_strain" }, { CSeqFeatData::eQual_tag_peptide, "tag_peptide" }, { CSeqFeatData::eQual_tissue_lib, "tissue_lib" }, { CSeqFeatData::eQual_tissue_type, "tissue_type" }, { CSeqFeatData::eQual_trans_splicing, "trans_splicing" }, { CSeqFeatData::eQual_transcript_id, "transcript_id" }, { CSeqFeatData::eQual_transgenic, "transgenic" }, { CSeqFeatData::eQual_translation, "translation" }, { CSeqFeatData::eQual_transl_except, "transl_except" }, { CSeqFeatData::eQual_transl_table, "transl_table" }, { CSeqFeatData::eQual_transposon, "transposon" }, { CSeqFeatData::eQual_type_material, "type_material" }, { CSeqFeatData::eQual_UniProtKB_evidence, "UniProtKB_evidence" }, { CSeqFeatData::eQual_usedin, "usedin" }, { CSeqFeatData::eQual_variety, "variety" }, { CSeqFeatData::eQual_virion, "virion" }, { CSeqFeatData::eQual_whole_replicon, "whole_replicon" } }
	)

Definition at line 3018 of file SeqFeatData.cpp.

◆ MAKE_TWOWAY_CONST_MAP() [2/2]

MAKE_TWOWAY_CONST_MAP	(	sm_FeatKeys	,
		ct::tagStrNocase	,
		CSeqFeatData::ESubtype	,
		{ { "-10_signal", CSeqFeatData::eSubtype_10_signal }, { "-35_signal", CSeqFeatData::eSubtype_35_signal }, { "3'UTR", CSeqFeatData::eSubtype_3UTR }, { "3'clip", CSeqFeatData::eSubtype_3clip }, { "5'UTR", CSeqFeatData::eSubtype_5UTR }, { "5'clip", CSeqFeatData::eSubtype_5clip }, { "Bond", CSeqFeatData::eSubtype_bond }, { "CAAT_signal", CSeqFeatData::eSubtype_CAAT_signal }, { "CDS", CSeqFeatData::eSubtype_cdregion }, { "C_region", CSeqFeatData::eSubtype_C_region }, { "Cit", CSeqFeatData::eSubtype_pub }, { "CloneRef", CSeqFeatData::eSubtype_clone }, { "Comment", CSeqFeatData::eSubtype_comment }, { "D-loop", CSeqFeatData::eSubtype_D_loop }, { "D_segment", CSeqFeatData::eSubtype_D_segment }, { "GC_signal", CSeqFeatData::eSubtype_GC_signal }, { "Het", CSeqFeatData::eSubtype_het }, { "J_segment", CSeqFeatData::eSubtype_J_segment }, { "LTR", CSeqFeatData::eSubtype_LTR }, { "N_region", CSeqFeatData::eSubtype_N_region }, { "NonStdRes", CSeqFeatData::eSubtype_non_std_residue }, { "Num", CSeqFeatData::eSubtype_num }, { "Protein", CSeqFeatData::eSubtype_prot }, { "RBS", CSeqFeatData::eSubtype_RBS }, { "REFERENCE", CSeqFeatData::eSubtype_pub }, { "Region", CSeqFeatData::eSubtype_region }, { "Rsite", CSeqFeatData::eSubtype_rsite }, { "STS", CSeqFeatData::eSubtype_STS }, { "S_region", CSeqFeatData::eSubtype_S_region }, { "SecStr", CSeqFeatData::eSubtype_psec_str }, { "Site", CSeqFeatData::eSubtype_site }, { "Site-ref", CSeqFeatData::eSubtype_site_ref }, { "Src", CSeqFeatData::eSubtype_biosrc }, { "TATA_signal", CSeqFeatData::eSubtype_TATA_signal }, { "TxInit", CSeqFeatData::eSubtype_txinit }, { "User", CSeqFeatData::eSubtype_user }, { "V_region", CSeqFeatData::eSubtype_V_region }, { "V_segment", CSeqFeatData::eSubtype_V_segment }, { "VariationRef", CSeqFeatData::eSubtype_variation_ref }, { "Xref", CSeqFeatData::eSubtype_seq }, { "assembly_gap", CSeqFeatData::eSubtype_assembly_gap }, { "attenuator", CSeqFeatData::eSubtype_attenuator }, { "centromere", CSeqFeatData::eSubtype_centromere }, { "conflict", CSeqFeatData::eSubtype_conflict }, { "enhancer", CSeqFeatData::eSubtype_enhancer }, { "exon", CSeqFeatData::eSubtype_exon }, { "gap", CSeqFeatData::eSubtype_gap }, { "gene", CSeqFeatData::eSubtype_gene }, { "iDNA", CSeqFeatData::eSubtype_iDNA }, { "intron", CSeqFeatData::eSubtype_intron }, { "mRNA", CSeqFeatData::eSubtype_mRNA }, { "mat_peptide", CSeqFeatData::eSubtype_mat_peptide_aa }, { "mat_peptide_nt", CSeqFeatData::eSubtype_mat_peptide }, { "misc_RNA", CSeqFeatData::eSubtype_otherRNA }, { "misc_binding", CSeqFeatData::eSubtype_misc_binding }, { "misc_difference", CSeqFeatData::eSubtype_misc_difference }, { "misc_feature", CSeqFeatData::eSubtype_misc_feature }, { "misc_recomb", CSeqFeatData::eSubtype_misc_recomb }, { "misc_signal", CSeqFeatData::eSubtype_misc_signal }, { "misc_structure", CSeqFeatData::eSubtype_misc_structure }, { "mobile_element", CSeqFeatData::eSubtype_mobile_element }, { "modified_base", CSeqFeatData::eSubtype_modified_base }, { "ncRNA", CSeqFeatData::eSubtype_ncRNA }, { "old_sequence", CSeqFeatData::eSubtype_old_sequence }, { "operon", CSeqFeatData::eSubtype_operon }, { "oriT", CSeqFeatData::eSubtype_oriT }, { "polyA_signal", CSeqFeatData::eSubtype_polyA_signal }, { "polyA_site", CSeqFeatData::eSubtype_polyA_site }, { "precursor_RNA", CSeqFeatData::eSubtype_preRNA }, { "prim_transcript", CSeqFeatData::eSubtype_prim_transcript }, { "primer_bind", CSeqFeatData::eSubtype_primer_bind }, { "promoter", CSeqFeatData::eSubtype_promoter }, { "propeptide", CSeqFeatData::eSubtype_propeptide_aa }, { "propeptide_nt", CSeqFeatData::eSubtype_propeptide }, { "proprotein", CSeqFeatData::eSubtype_preprotein }, { "protein_bind", CSeqFeatData::eSubtype_protein_bind }, { "rRNA", CSeqFeatData::eSubtype_rRNA }, { "regulatory", CSeqFeatData::eSubtype_regulatory }, { "rep_origin", CSeqFeatData::eSubtype_rep_origin }, { "repeat_region", CSeqFeatData::eSubtype_repeat_region }, { "repeat_unit", CSeqFeatData::eSubtype_repeat_unit }, { "satellite", CSeqFeatData::eSubtype_satellite }, { "scRNA", CSeqFeatData::eSubtype_scRNA }, { "sig_peptide", CSeqFeatData::eSubtype_sig_peptide_aa }, { "sig_peptide_nt", CSeqFeatData::eSubtype_sig_peptide }, { "snRNA", CSeqFeatData::eSubtype_snRNA }, { "snoRNA", CSeqFeatData::eSubtype_snoRNA }, { "source", CSeqFeatData::eSubtype_biosrc }, { "stem_loop", CSeqFeatData::eSubtype_stem_loop }, { "tRNA", CSeqFeatData::eSubtype_tRNA }, { "telomere", CSeqFeatData::eSubtype_telomere }, { "terminator", CSeqFeatData::eSubtype_terminator }, { "tmRNA", CSeqFeatData::eSubtype_tmRNA }, { "transit_peptide", CSeqFeatData::eSubtype_transit_peptide_aa }, { "transit_peptide_nt", CSeqFeatData::eSubtype_transit_peptide }, { "unsure", CSeqFeatData::eSubtype_unsure }, { "variation", CSeqFeatData::eSubtype_variation }, { "virion", CSeqFeatData::eSubtype_virion } }
	)

Definition at line 399 of file SeqFeatData.cpp.

◆ x_SpaceToDash()

string x_SpaceToDash ( string str1 )

Definition at line 4286 of file SeqFeatData.cpp.

References NStr::Find().

Referenced by CBondList::GetBondType(), CSiteList::GetSiteType(), CBondList::IsBondName(), and CSiteList::IsSiteName().

Variable Documentation

◆ bond_key_to_subtype

const CBondList::TBondKey bond_key_to_subtype[]

static

Initial value:

= {
    { "disulfide",  CSeqFeatData::eBond_disulfide  },
    { "other",      CSeqFeatData::eBond_other      },
    { "thioether",  CSeqFeatData::eBond_thioether  },
    { "thiolester", CSeqFeatData::eBond_thiolester },
    { "xlink",      CSeqFeatData::eBond_xlink      }
}

Definition at line 4297 of file SeqFeatData.cpp.

◆ kImportTable

const SImportEntry kImportTable[]

static

Definition at line 76 of file SeqFeatData.cpp.

Referenced by CSeqFeatData::FixImportKey(), CSeqFeatData::s_InitSubtypesTable(), CFeatList::x_Init(), and CSeqFeatData::x_InitFeatDataInfo().

◆ kImportTableEnd

const SImportEntry* const kImportTableEnd = kImportTable + sizeof(kImportTable)/sizeof(kImportTable[0])

static

Definition at line 148 of file SeqFeatData.cpp.

Referenced by CSeqFeatData::FixImportKey(), CSeqFeatData::s_InitSubtypesTable(), CFeatList::x_Init(), and CSeqFeatData::x_InitFeatDataInfo().

◆ kInfoPairs

const TInfoPair kInfoPairs[]

static

Initial value:

= {
    { CSeqFeatData::e_Gene ,   { CSeqFeatData::eSubtype_gene ,  "Gene" ,  "gene"  } },
    { CSeqFeatData::e_Org ,   { CSeqFeatData::eSubtype_org ,  "Org" ,  "source"  } },
    { CSeqFeatData::e_Cdregion ,   { CSeqFeatData::eSubtype_cdregion ,  "CDS" ,  "CDS"  } },
    { CSeqFeatData::e_Pub ,   { CSeqFeatData::eSubtype_pub ,  "Cit" ,  "misc_feature"  } },
    { CSeqFeatData::e_Seq ,   { CSeqFeatData::eSubtype_seq ,  "Xref" ,  "misc_feature"  } },
    { CSeqFeatData::e_Region ,   { CSeqFeatData::eSubtype_region ,  "Region" ,  "misc_feature"  } },
    { CSeqFeatData::e_Comment ,   { CSeqFeatData::eSubtype_comment ,  "Comment" ,  "misc_feature"  } },
    { CSeqFeatData::e_Bond ,   { CSeqFeatData::eSubtype_bond ,  "Bond" ,  "misc_feature"  } },
    { CSeqFeatData::e_Rsite ,   { CSeqFeatData::eSubtype_rsite ,  "Rsite" ,  "misc_feature"  } },
    { CSeqFeatData::e_User ,   { CSeqFeatData::eSubtype_user ,  "User" ,  "misc_feature"  } },
    { CSeqFeatData::e_Txinit ,   { CSeqFeatData::eSubtype_txinit ,  "TxInit" ,  "promoter"  } },
    { CSeqFeatData::e_Num ,   { CSeqFeatData::eSubtype_num ,  "Num" ,  "misc_feature"  } },
    { CSeqFeatData::e_Psec_str ,   { CSeqFeatData::eSubtype_psec_str ,  "SecStr" ,  "SecStr"  } },
    { CSeqFeatData::e_Non_std_residue ,   { CSeqFeatData::eSubtype_non_std_residue ,  "NonStdRes" ,  "NonStdRes"  } },
    { CSeqFeatData::e_Het ,   { CSeqFeatData::eSubtype_het ,  "Het" ,  "Het"  } },
    { CSeqFeatData::e_Biosrc ,   { CSeqFeatData::eSubtype_biosrc ,  "Src" ,  "source"  } },
    { CSeqFeatData::e_Clone ,   { CSeqFeatData::eSubtype_clone ,  "CloneRef" ,  "misc_feature"  } },
    { CSeqFeatData::e_Variation ,   { CSeqFeatData::eSubtype_variation_ref ,  "Variation" ,  "variation"  } }
}

Definition at line 158 of file SeqFeatData.cpp.

◆ kProtInfoPairs

const TProtInfoPair kProtInfoPairs[]

static

Initial value:

= {
    { CProt_ref::eProcessed_preprotein ,   { CSeqFeatData::eSubtype_preprotein ,  "Prot" ,  "proprotein"  } },
    { CProt_ref::eProcessed_mature ,   { CSeqFeatData::eSubtype_mat_peptide_aa ,  "Prot" ,  "mat_peptide"  } },
    { CProt_ref::eProcessed_signal_peptide ,   { CSeqFeatData::eSubtype_sig_peptide_aa ,  "Prot" ,  "sig_peptide"  } },
    { CProt_ref::eProcessed_transit_peptide ,   { CSeqFeatData::eSubtype_transit_peptide_aa ,  "Prot" ,  "transit_peptide"  } },
    { CProt_ref::eProcessed_propeptide ,   { CSeqFeatData::eSubtype_propeptide_aa ,  "Prot" ,  "propeptide"  } }
}

Definition at line 191 of file SeqFeatData.cpp.

◆ kRnaInfoPairs

const TRnaInfoPair kRnaInfoPairs[]

static

Initial value:

= {
    { CRNA_ref::eType_premsg ,   { CSeqFeatData::eSubtype_preRNA ,  "precursor_RNA" ,  "precursor_RNA"  } },
    { CRNA_ref::eType_mRNA ,   { CSeqFeatData::eSubtype_mRNA ,  "mRNA" ,  "mRNA"  } },
    { CRNA_ref::eType_tRNA ,   { CSeqFeatData::eSubtype_tRNA ,  "tRNA" ,  "tRNA"  } },
    { CRNA_ref::eType_rRNA ,   { CSeqFeatData::eSubtype_rRNA ,  "rRNA" ,  "rRNA"  } },
    { CRNA_ref::eType_snRNA ,   { CSeqFeatData::eSubtype_snRNA ,  "snRNA" ,  "snRNA"  } },
    { CRNA_ref::eType_scRNA ,   { CSeqFeatData::eSubtype_scRNA ,  "scRNA" ,  "scRNA"  } },
    { CRNA_ref::eType_snoRNA ,   { CSeqFeatData::eSubtype_snoRNA ,  "snoRNA" ,  "snoRNA"  } },
    { CRNA_ref::eType_ncRNA ,   { CSeqFeatData::eSubtype_ncRNA ,  "ncRNA" ,  "ncRNA"  } },
    { CRNA_ref::eType_tmRNA ,   { CSeqFeatData::eSubtype_tmRNA ,  "tmRNA" ,  "tmRNA"  } }
}

Definition at line 233 of file SeqFeatData.cpp.

◆ kSiteInfoPairs

const TSiteInfoPair kSiteInfoPairs[]

static

Initial value:

= {
    { CSeqFeatData::eSite_binding ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "misc_binding"  } },
    { CSeqFeatData::eSite_metal_binding ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "misc_binding"  } },
    { CSeqFeatData::eSite_lipid_binding ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "misc_binding"  } },
    { CSeqFeatData::eSite_np_binding ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "protein_bind"  } },
    { CSeqFeatData::eSite_dna_binding ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "primer_bind"  } },
    { CSeqFeatData::eSite_signal_peptide ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "sig_peptide"  } },
    { CSeqFeatData::eSite_transit_peptide ,   { CSeqFeatData::eSubtype_site ,  "Site" ,  "transit_peptide"  } }
}

Definition at line 211 of file SeqFeatData.cpp.

◆ s_subtype_count

const size_t s_subtype_count

static

Initial value:

=

sizeof(s_subtype_info)/sizeof(s_subtype_info[0])

s_subtype_info

static const SSubtypeInfo s_subtype_info[]

Definition: SeqFeatData.cpp:582

Definition at line 692 of file SeqFeatData.cpp.

Referenced by CSeqFeatData::s_InitSubtypesTable().

◆ s_subtype_info

const SSubtypeInfo s_subtype_info[]

static

Definition at line 582 of file SeqFeatData.cpp.

Referenced by CSeqFeatData::s_InitSubtypesTable().

◆ sc_ConfigItemInit

const SFeatListItem sc_ConfigItemInit[]

static

Definition at line 4032 of file SeqFeatData.cpp.

Referenced by CFeatList::x_Init().

◆ site_key_to_subtype

const CSiteList::TSiteKey site_key_to_subtype[]

static

Initial value:

= {
    { "acetylation",                 CSeqFeatData::eSite_acetylation                 },
    { "active",                      CSeqFeatData::eSite_active                      },
    { "amidation",                   CSeqFeatData::eSite_amidation                   },
    { "binding",                     CSeqFeatData::eSite_binding                     },
    { "blocked",                     CSeqFeatData::eSite_blocked                     },
    { "cleavage",                    CSeqFeatData::eSite_cleavage                    },
    { "DNA binding",                 CSeqFeatData::eSite_dna_binding                 },
    { "gamma carboxyglutamic acid",  CSeqFeatData::eSite_gamma_carboxyglutamic_acid  },
    { "glycosylation",               CSeqFeatData::eSite_glycosylation               },
    { "hydroxylation",               CSeqFeatData::eSite_hydroxylation               },
    { "inhibit",                     CSeqFeatData::eSite_inhibit                     },
    { "lipid binding",               CSeqFeatData::eSite_lipid_binding               },
    { "metal binding",               CSeqFeatData::eSite_metal_binding               },
    { "methylation",                 CSeqFeatData::eSite_methylation                 },
    { "modified",                    CSeqFeatData::eSite_modified                    },
    { "mutagenized",                 CSeqFeatData::eSite_mutagenized                 },
    { "myristoylation",              CSeqFeatData::eSite_myristoylation              },
    { "nitrosylation",               CSeqFeatData::eSite_nitrosylation               },
    { "np binding",                  CSeqFeatData::eSite_np_binding                  },
    { "other",                       CSeqFeatData::eSite_other                       },
    { "oxidative deamination",       CSeqFeatData::eSite_oxidative_deamination       },
    { "phosphorylation",             CSeqFeatData::eSite_phosphorylation             },
    { "pyrrolidone carboxylic acid", CSeqFeatData::eSite_pyrrolidone_carboxylic_acid },
    { "signal peptide",              CSeqFeatData::eSite_signal_peptide              },
    { "sulfatation",                 CSeqFeatData::eSite_sulfatation                 },
    { "transit peptide",             CSeqFeatData::eSite_transit_peptide             },
    { "transmembrane region",        CSeqFeatData::eSite_transmembrane_region        },
    { "unclassified",                CSeqFeatData::eSite_other                       }
}

Definition at line 4351 of file SeqFeatData.cpp.

◆ sx_SubtypesTable

CSafeStatic<TSubtypesTable> sx_SubtypesTable

static

Definition at line 388 of file SeqFeatData.cpp.

Referenced by CSeqFeatData::GetTypeFromSubtype(), and CSeqFeatData::s_InitSubtypesTable().

◆ sx_SubtypesTableInitialized

atomic<bool> sx_SubtypesTableInitialized

static

Definition at line 389 of file SeqFeatData.cpp.

Referenced by CSeqFeatData::GetTypeFromSubtype(), and CSeqFeatData::s_InitSubtypesTable().

Classes

Macros

Typedefs

Functions

Variables

Macro Definition Documentation

◆ ADD_XREF_PAIR

◆ FEAT_INFO_PAIR

◆ PROT_INFO_PAIR

◆ RNA_INFO_PAIR

◆ SITE_INFO_PAIR

◆ SUBTYPE_INFO

Typedef Documentation

◆ TInfoMap

◆ TInfoPair

◆ TProtInfoMap

◆ TProtInfoPair

◆ TRnaInfoMap

◆ TRnaInfoPair

◆ TSiteInfoMap

◆ TSiteInfoPair

◆ TSubtypesTable

Function Documentation

◆ DEFINE_CLASS_STATIC_ARRAY_MAP() [1/2]

◆ DEFINE_CLASS_STATIC_ARRAY_MAP() [2/2]

◆ DEFINE_STATIC_ARRAY_MAP() [1/4]

◆ DEFINE_STATIC_ARRAY_MAP() [2/4]

◆ DEFINE_STATIC_ARRAY_MAP() [3/4]

◆ DEFINE_STATIC_ARRAY_MAP() [4/4]

◆ DEFINE_STATIC_MUTEX()

◆ MAKE_TWOWAY_CONST_MAP() [1/2]

◆ MAKE_TWOWAY_CONST_MAP() [2/2]

◆ x_SpaceToDash()

Variable Documentation

◆ bond_key_to_subtype

◆ kImportTable

◆ kImportTableEnd

◆ kInfoPairs

◆ kProtInfoPairs

◆ kRnaInfoPairs

◆ kSiteInfoPairs

◆ s_subtype_count

◆ s_subtype_info

◆ sc_ConfigItemInit

◆ site_key_to_subtype

◆ sx_SubtypesTable

◆ sx_SubtypesTableInitialized