User_object.cpp File Reference

#include <ncbi_pch.hpp>
#include <objects/general/User_object.hpp>
#include <objects/general/User_field.hpp>
#include <objects/general/Object_id.hpp>
#include <util/static_map.hpp>

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Typedefs
typedef SStaticPair< const char *, CUser_object::EObjectType >	TObjectTypePair
typedef CStaticArrayMap< const char *, CUser_object::EObjectType, PNocase_CStr >	TObjectTypeMap
typedef SStaticPair< const char *, CUser_object::ERefGeneTrackingStatus >	TRefGeneTrackingStatusPair
typedef CStaticArrayMap< const char *, CUser_object::ERefGeneTrackingStatus, PNocase_CStr >	TRefGeneTrackingStatusMap

Functions
	SAFE_CONST_STATIC_STRING (kUnverifiedOrganism, "Organism")
	SAFE_CONST_STATIC_STRING (kUnverifiedMisassembled, "Misassembled")
	SAFE_CONST_STATIC_STRING (kUnverifiedFeature, "Features")
	SAFE_CONST_STATIC_STRING (kUnverifiedContaminant, "Contaminant")
	SAFE_CONST_STATIC_STRING (kUnreviewedUnannotated, "Unannotated")
static string	s_GetUserObjectType (const CUser_object &obj)
static string	s_GetUserObjectContent (const CUser_object &obj)
	DEFINE_STATIC_ARRAY_MAP (TObjectTypeMap, sc_ObjectTypeMap, k_object_type_map)
	DEFINE_STATIC_ARRAY_MAP (TRefGeneTrackingStatusMap, sc_RefGeneTrackingStatusMap, k_refgene_tracking_status_map)

Variables
static const char *	s_ncbi = "NCBI"
static const char *	s_expres = "experimental_results"
static const char *	s_exp = "experiment"
static const char *	s_sage = "SAGE"
static const char *	s_tag = "tag"
static const char *	s_count = "count"
static const char *	kDBLink = "DBLink"
static const char *	kStructuredComment = "StructuredComment"
static const char *	kOriginalId = "OriginalID"
static const char *	kOrigIdAltSpell = "OrginalID"
static const char *	kUnverified = "Unverified"
static const char *	kValidationSuppression = "ValidationSuppression"
static const char *	kNcbiCleanup = "NcbiCleanup"
static const char *	kAutoDefOptions = "AutodefOptions"
static const char *	kFileTrack = "FileTrack"
static const char *	kRefGeneTracking = "RefGeneTracking"
static const char *	kUnreviewed = "Unreviewed"
static const TObjectTypePair	k_object_type_map []
static const TRefGeneTrackingStatusPair	k_refgene_tracking_status_map []
const string	kRefGeneTrackingStatus = "Status"
const string	kRefGeneTrackingGenomicSource = "GenomicSource"
const string	kRefGeneTrackingCollaborator = "Collaborator"
const string	kRefGeneTrackingCollaboratorURL = "CollaboratorURL"
const string	kRefGeneTrackingGenerated = "Generated"
const string	kRGTAAccession = "accession"
const string	kRGTAName = "name"
const string	kRGTAGI = "gi"
const string	kRGTAFrom = "from"
const string	kRGTATo = "to"
const string	kRGTAComment = "comment"
const string	kRefGeneTrackingIdenticalTo = "IdenticalTo"
const string	kRefGeneTrackingAssembly = "Assembly"

Typedef Documentation

TObjectTypeMap

typedef CStaticArrayMap<const char*, CUser_object::EObjectType, PNocase_CStr> TObjectTypeMap

Definition at line 621 of file User_object.cpp.

TObjectTypePair

typedef SStaticPair<const char*, CUser_object::EObjectType> TObjectTypePair

Definition at line 608 of file User_object.cpp.

TRefGeneTrackingStatusMap

typedef CStaticArrayMap<const char*, CUser_object::ERefGeneTrackingStatus, PNocase_CStr> TRefGeneTrackingStatusMap

Definition at line 983 of file User_object.cpp.

TRefGeneTrackingStatusPair

typedef SStaticPair<const char*, CUser_object::ERefGeneTrackingStatus> TRefGeneTrackingStatusPair

Definition at line 973 of file User_object.cpp.

Function Documentation

DEFINE_STATIC_ARRAY_MAP() [1/2]

DEFINE_STATIC_ARRAY_MAP	(	TObjectTypeMap	,
		sc_ObjectTypeMap	,
		k_object_type_map
	)

DEFINE_STATIC_ARRAY_MAP() [2/2]

DEFINE_STATIC_ARRAY_MAP	(	TRefGeneTrackingStatusMap	,
		sc_RefGeneTrackingStatusMap	,
		k_refgene_tracking_status_map
	)

s_GetUserObjectContent()

static string s_GetUserObjectContent ( const CUser_object &  obj )

static

Definition at line 470 of file User_object.cpp.

References NStr::CompareNocase(), count, CUser_object::eCategory_Experiment, CUser_object::eCategory_Unknown, CUser_object::eExperiment_Sage, CUser_object::eExperiment_Unknown, CUser_object::GetCategory(), CUser_object_Base::GetData(), CUser_object::GetExperimentType(), CUser_field_Base::GetLabel(), CObject_id_Base::GetStr(), CObject_id_Base::IsStr(), ITERATE, label, NULL, NStr::NumericToString(), s_count, s_tag, string, and tag.

Referenced by CUser_object::GetLabel().

s_GetUserObjectType()

static string s_GetUserObjectType ( const CUser_object &  obj )

static

Definition at line 447 of file User_object.cpp.

References CUser_object::eCategory_Experiment, CUser_object::eCategory_Unknown, CUser_object::eExperiment_Sage, CUser_object::eExperiment_Unknown, CUser_object::GetCategory(), and CUser_object::GetExperimentType().

Referenced by CUser_object::GetLabel().

SAFE_CONST_STATIC_STRING() [1/5]

SAFE_CONST_STATIC_STRING	(	kUnreviewedUnannotated	,
		"Unannotated"
	)

SAFE_CONST_STATIC_STRING() [2/5]

SAFE_CONST_STATIC_STRING	(	kUnverifiedContaminant	,
		"Contaminant"
	)

SAFE_CONST_STATIC_STRING() [3/5]

SAFE_CONST_STATIC_STRING	(	kUnverifiedFeature	,
		"Features"
	)

SAFE_CONST_STATIC_STRING() [4/5]

SAFE_CONST_STATIC_STRING	(	kUnverifiedMisassembled	,
		"Misassembled"
	)

SAFE_CONST_STATIC_STRING() [5/5]

SAFE_CONST_STATIC_STRING	(	kUnverifiedOrganism	,
		"Organism"
	)

Variable Documentation

k_object_type_map

const TObjectTypePair k_object_type_map[]

static

Initial value:

= {
    { kAutoDefOptions, CUser_object::eObjectType_AutodefOptions },
    { kDBLink, CUser_object::eObjectType_DBLink },
    { kFileTrack, CUser_object::eObjectType_FileTrack },
    { kNcbiCleanup, CUser_object::eObjectType_Cleanup },
    { kOriginalId, CUser_object::eObjectType_OriginalId },
    { kRefGeneTracking, CUser_object::eObjectType_RefGeneTracking },
    { kStructuredComment, CUser_object::eObjectType_StructuredComment },
    { kUnreviewed, CUser_object::eObjectType_Unreviewed },
    { kUnverified, CUser_object::eObjectType_Unverified },
    { kValidationSuppression, CUser_object::eObjectType_ValidationSuppression }
}

Definition at line 609 of file User_object.cpp.

k_refgene_tracking_status_map

const TRefGeneTrackingStatusPair k_refgene_tracking_status_map[]

static

Initial value:

= {
    { "INFERRED", CUser_object::eRefGeneTrackingStatus_INFERRED },
    { "PIPELINE", CUser_object::eRefGeneTrackingStatus_PIPELINE },
    { "PREDICTED", CUser_object::eRefGeneTrackingStatus_PREDICTED },
    { "PROVISIONAL", CUser_object::eRefGeneTrackingStatus_PROVISIONAL },
    { "REVIEWED", CUser_object::eRefGeneTrackingStatus_REVIEWED },
    { "VALIDATED", CUser_object::eRefGeneTrackingStatus_VALIDATED },
    { "WGS", CUser_object::eRefGeneTrackingStatus_WGS }
}

Definition at line 974 of file User_object.cpp.

kAutoDefOptions

const char* kAutoDefOptions = "AutodefOptions"

static

Definition at line 603 of file User_object.cpp.

kDBLink

const char* kDBLink = "DBLink"

static

Definition at line 596 of file User_object.cpp.

kFileTrack

const char* kFileTrack = "FileTrack"

static

Definition at line 604 of file User_object.cpp.

Referenced by CApplyIndexerComments::CreateControls(), CApplyIndexerComments::CreateNewComment(), CApplyIndexerComments::GetUserObjectComment(), and CApplyIndexerComments::OnSelect().

kNcbiCleanup

const char* kNcbiCleanup = "NcbiCleanup"

static

Definition at line 602 of file User_object.cpp.

kOrigIdAltSpell

const char* kOrigIdAltSpell = "OrginalID"

static

Definition at line 599 of file User_object.cpp.

Referenced by CUser_object::GetObjectType().

kOriginalId

const char* kOriginalId = "OriginalID"

static

Definition at line 598 of file User_object.cpp.

kRefGeneTracking

const char* kRefGeneTracking = "RefGeneTracking"

static

Definition at line 605 of file User_object.cpp.

kRefGeneTrackingAssembly

const string kRefGeneTrackingAssembly = "Assembly"

Definition at line 1268 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingAssembly(), CUser_object::ResetRefGeneTrackingAssembly(), and CUser_object::SetRefGeneTrackingAssembly().

kRefGeneTrackingCollaborator

const string kRefGeneTrackingCollaborator = "Collaborator"

Definition at line 1048 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingCollaborator(), CUser_object::ResetRefGeneTrackingCollaborator(), and CUser_object::SetRefGeneTrackingCollaborator().

kRefGeneTrackingCollaboratorURL

const string kRefGeneTrackingCollaboratorURL = "CollaboratorURL"

Definition at line 1067 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingCollaboratorURL(), CUser_object::ResetRefGeneTrackingCollaboratorURL(), and CUser_object::SetRefGeneTrackingCollaboratorURL().

kRefGeneTrackingGenerated

const string kRefGeneTrackingGenerated = "Generated"

Definition at line 1086 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingGenerated(), CUser_object::ResetRefGeneTrackingGenerated(), and CUser_object::SetRefGeneTrackingGenerated().

kRefGeneTrackingGenomicSource

const string kRefGeneTrackingGenomicSource = "GenomicSource"

Definition at line 1028 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingGenomicSource(), CUser_object::ResetRefGeneTrackingGenomicSource(), and CUser_object::SetRefGeneTrackingGenomicSource().

kRefGeneTrackingIdenticalTo

const string kRefGeneTrackingIdenticalTo = "IdenticalTo"

Definition at line 1236 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingIdenticalTo(), CUser_object::ResetRefGeneTrackingIdenticalTo(), and CUser_object::SetRefGeneTrackingIdenticalTo().

kRefGeneTrackingStatus

const string kRefGeneTrackingStatus = "Status"

Definition at line 986 of file User_object.cpp.

Referenced by CUser_object::GetRefGeneTrackingStatus(), CUser_object::ResetRefGeneTrackingStatus(), and CUser_object::SetRefGeneTrackingStatus().

kRGTAAccession

const string kRGTAAccession = "accession"

Definition at line 1117 of file User_object.cpp.

Referenced by CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), and CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField().

kRGTAComment

const string kRGTAComment = "comment"

Definition at line 1122 of file User_object.cpp.

Referenced by CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), and CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField().

kRGTAFrom

const string kRGTAFrom = "from"

Definition at line 1120 of file User_object.cpp.

Referenced by CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), and CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField().

kRGTAGI

const string kRGTAGI = "gi"

Definition at line 1119 of file User_object.cpp.

Referenced by CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), and CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField().

kRGTAName

const string kRGTAName = "name"

Definition at line 1118 of file User_object.cpp.

Referenced by CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), and CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField().

kRGTATo

const string kRGTATo = "to"

Definition at line 1121 of file User_object.cpp.

Referenced by CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), and CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField().

kStructuredComment

const char* kStructuredComment = "StructuredComment"

static

Definition at line 597 of file User_object.cpp.

kUnreviewed

const char* kUnreviewed = "Unreviewed"

static

Definition at line 606 of file User_object.cpp.

kUnverified

const char* kUnverified = "Unverified"

static

Definition at line 600 of file User_object.cpp.

kValidationSuppression

const char* kValidationSuppression = "ValidationSuppression"

static

Definition at line 601 of file User_object.cpp.

s_count

const char* s_count = "count"

static

Definition at line 362 of file User_object.cpp.

Referenced by s_GetUserObjectContent().

s_exp

const char* s_exp = "experiment"

static

Definition at line 359 of file User_object.cpp.

Referenced by CUser_object::GetCategory(), and CUser_object::SetCategory().

s_expres

const char* s_expres = "experimental_results"

static

Definition at line 358 of file User_object.cpp.

Referenced by CUser_object::GetCategory(), and CUser_object::SetCategory().

s_ncbi

const char* s_ncbi = "NCBI"

static

Definition at line 357 of file User_object.cpp.

Referenced by CUser_object::GetCategory(), CUser_object::SetCategory(), and CUser_object::SetExperiment().

s_sage

const char* s_sage = "SAGE"

static

Definition at line 360 of file User_object.cpp.

Referenced by CUser_object::GetExperimentType(), and CUser_object::SetExperiment().

s_tag

const char* s_tag = "tag"

static

Definition at line 361 of file User_object.cpp.

Referenced by s_GetUserObjectContent().