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NCBI C++ ToolKit: src/objects/seqfeat/Prot_ref.cpp Source File

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CProt_ref::TEc::iterator it =

().begin();

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CProt_ref::TEc::iterator it =

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it =

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static bool s_ECNumberMapsInitialized

map< string, CProt_ref::EECNumberStatus, PNocase > TECNumberStatusMap

static CProt_ref::EECNumberFileStatus s_ECNumAmbiguousStatus

static void s_ProcessECNumberLine(const CTempString &line, CProt_ref::EECNumberStatus status)

static CProt_ref::EECNumberFileStatus s_ECNumSpecificStatus

static CProt_ref::EECNumberFileStatus s_ECNumDeletedStatus

DEFINE_STATIC_FAST_MUTEX(s_ECNumberMutex)

static CProt_ref::EECNumberFileStatus s_ECNumReplacedStatus

map< string, string > TECNumberReplacementMap

static CProt_ref::EECNumberFileStatus s_LoadECNumberTable(const string &dir, const string &name, const char *const *fallback, size_t fallback_count, CProt_ref::EECNumberStatus status)

static TECNumberReplacementMap s_ECNumberReplacementMap

static void s_InitializeECNumberMaps(void)

static TECNumberStatusMap s_ECNumberStatusMap

static EECNumberFileStatus GetECNumAmbiguousStatus()

static EECNumberFileStatus GetECNumSpecificStatus()

EECNumberFileStatus

Enzyme Commission file status.

@ eECFile_not_found

File was not found in expected directory.

@ eECFile_not_attempted

No attempt has been made to read the file.

@ eECFile_not_read

File was found but could not be read.

@ eECFile_read

File was read successfully (and is being instead of the compiled fallback data.

void GetLabel(string *label) const

static bool IsECNumberSplit(const string &old_ecno)

static bool IsValidECNumberFormat(const string &ecno)

Verify correct form of EC number.

static const string & GetECNumberReplacement(const string &old_ecno)

Return a replaced EC number's replacement.

static EECNumberFileStatus GetECNumDeletedStatus()

EECNumberStatus

Enzyme Commission number status.

@ eEC_replaced

Obsolete synonym for some other EC number.

@ eEC_unknown

Unrecognized; possibly malformed.

@ eEC_deleted

Withdrawn, with no (single?) replacement.

static EECNumberFileStatus GetECNumReplacedStatus()

static EECNumberStatus GetECNumberStatus(const string &ecno)

Determine an EC number's validity and specificity.

CTempString implements a light-weight string on top of a storage buffer whose lifetime management is ...

container_type::const_iterator const_iterator

const_iterator end() const

const_iterator find(const key_type &key) const

#define ERR_POST_X(err_subcode, message)

Error posting with default error code and given error subcode.

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

void Warning(CExceptionArgs_Base &args)

static string MakePath(const string &dir=kEmptyStr, const string &base=kEmptyStr, const string &ext=kEmptyStr)

Assemble a path from basic components.

static string AddTrailingPathSeparator(const string &path)

Add trailing path separator, if needed.

static CRef< ILineReader > New(const string &filename)

Return a new ILineReader object corresponding to the given filename, taking "-" (but not "....

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

NCBI_NS_STD::string::size_type SIZE_TYPE

static bool IsBlank(const CTempString str, SIZE_TYPE pos=0)

Check if a string is blank (has no text).

static SIZE_TYPE Find(const CTempString str, const CTempString pattern, ECase use_case=eCase, EDirection direction=eForwardSearch, SIZE_TYPE occurrence=0)

Find the pattern in the string.

CTempString substr(size_type pos) const

Obtain a substring from this string, beginning at a given offset.

static bool EqualNocase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-insensitive equality of a substring with another string.

size_type find(const CTempString match, size_type pos=0) const

Find the first instance of the entire matching string within the current string, beginning at an opti...

static const char label[]

bool IsSetDesc(void) const

description (instead of name) Check if a value has been assigned to Desc data member.

const TDb & GetDb(void) const

Get the Db member data.

TEc & SetEc(void)

Assign a value to Ec data member.

const TName & GetName(void) const

Get the Name member data.

bool IsSetDb(void) const

ids in other dbases Check if a value has been assigned to Db data member.

bool IsSetEc(void) const

E.C.

bool IsSetName(void) const

protein name Check if a value has been assigned to Name data member.

const TDesc & GetDesc(void) const

Get the Desc member data.

void ResetEc(void)

Reset Ec data member.

Definition of all error codes used in objects libraries.

Lightweight interface for getting lines of data with minimal memory copying.

constexpr bool empty(list< Ts... >) noexcept

Multi-threading – mutexes; rw-locks; semaphore.

static SLJIT_INLINE sljit_ins lr(sljit_gpr dst, sljit_gpr src)

string g_FindDataFile(const CTempString &name, CDirEntry::EType type=CDirEntry::eFile)

Look for an NCBI application data file or directory of the given name and type; in general,...

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