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NCBI C++ ToolKit: src/objtools/readers/struct_cmt_reader.cpp Source File

list<CStructComment>& comments,

numCols = cols.size();

(!reader.

())

(current.

())

vector<CTempString> values;

(values[0].

()) {

(values.size() > numCols) {

{

};

comments.size();

(! reader.

()) {

(current.

())

& user = desc.

();

(user.IsSetType() && user.GetType().IsStr() &&

(user.GetType().GetStr(),

))

(user.IsSetData() && user.GetData().size() > 0)

& fdata = *user.

().front();

(fdata.IsSetLabel() && fdata.GetLabel().IsStr() &&

(fdata.GetLabel().GetStr(),

))

fdata.GetData().GetStr();

unique_ptr<CLineErrorEx> pMsg{

(name.

(

) == 0)

user_obj = &(user_desc->

());

user_obj->

().SetStr(

);

cmt.

.push_back(user_desc);

(name.

(

) == 0)

cmt.

.reserve(values.size() - 1);

(

= 1;

<values.size();

++)

(!values[

].

())

(!reader.

() && cols.empty())

(pTsid->

() == commentIdText);

(seqID.

()) {

(general.IsSetTag()) {

(general.GetTag().IsStr()) {

chain =

(pid.

());

seqIdText +=

(chain);

(seqIdText == commentIdText);

User-defined methods of the data storage class.

static CLineErrorEx * Create(EProblem eProblem, EDiagSev eSeverity, int code, int subcode, const std::string &strSeqId, unsigned int uLine, const std::string &strErrorMessage=string(""), const std::string &strFeatureName=string(""), const std::string &strQualifierName=string(""), const std::string &strQualifierValue=string(""), const TVecOfLines &vecOfOtherLines=TVecOfLines())

Use this because the constructor is protected.

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

CUser_object & AddField(const string &label, const string &value, EParseField parse=eParse_String)

add a data field to the user object that holds a given value

@ eProblem_GeneralParsingError

Abstract base class for lightweight line-by-line reading.

#define ERR_POST_X(err_subcode, message)

Error posting with default error code and given error subcode.

EDiagSev

Severity level for the posted diagnostics.

@ eDiag_Error

Error message.

const TPrim & Get(void) const

CTempString GetCurrentLine(void) const

virtual Uint8 GetLineNumber(void) const =0

Returns the current line number (counting from 1, not 0).

virtual bool AtEOF(void) const =0

Indicates (negatively) whether there is any more input.

const CTextseq_id * GetTextseq_Id(void) const

Return embedded CTextseq_id, if any.

E_SIC Compare(const CSeq_id &sid2) const

Compare() - more general.

@ e_YES

SeqIds compared, but are different.

void Reset(void)

Reset reference object.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static list< string > & Split(const CTempString str, const CTempString delim, list< string > &arr, TSplitFlags flags=0, vector< SIZE_TYPE > *token_pos=NULL)

Split a string using specified delimiters.

static string IntToString(int value, TNumToStringFlags flags=0, int base=10)

Convert int to string.

bool empty(void) const

Return true if the represented string is empty (i.e., the length is zero)

int compare(const CTempString str) const

Compare the current string with a given string.

static bool StartsWith(const CTempString str, const CTempString start, ECase use_case=eCase)

Check if a string starts with a specified prefix value.

static bool SplitInTwo(const CTempString str, const CTempString delim, string &str1, string &str2, TSplitFlags flags=0)

Split a string into two pieces using the specified delimiters.

static enable_if< is_arithmetic< TNumeric >::value||is_convertible< TNumeric, Int8 >::value, string >::type NumericToString(TNumeric value, TNumToStringFlags flags=0, int base=10)

Convert numeric value to string.

static bool Equal(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2, ECase use_case=eCase)

Test for equality of a substring with another string.

bool IsNumber(void) const

Check if variant Number is selected.

const TId & GetId(void) const

Get the Id member data.

const TNumber & GetNumber(void) const

Get the variant data.

const TApp_number & GetApp_number(void) const

Get the variant data.

const TTag & GetTag(void) const

Get the Tag member data.

const TStr & GetStr(void) const

Get the variant data.

const TData & GetData(void) const

Get the Data member data.

void SetType(TType &value)

Assign a value to Type data member.

TChain GetChain(void) const

Get the Chain member data.

const TPdb & GetPdb(void) const

Get the variant data.

TGibbsq GetGibbsq(void) const

Get the variant data.

TId GetId(void) const

Get the Id member data.

bool IsSetChain_id(void) const

chain identifier; length-independent generalization of 'chain' Check if a value has been assigned to ...

bool IsSetChain(void) const

Deprecated: 'chain' can't support multiple character PDB chain identifiers (introduced in 2015).

bool IsSetAccession(void) const

Check if a value has been assigned to Accession data member.

const TName & GetName(void) const

Get the Name member data.

E_Choice Which(void) const

Which variant is currently selected.

TGi GetGi(void) const

Get the variant data.

const TMol & GetMol(void) const

Get the Mol member data.

TSeqid GetSeqid(void) const

Get the Seqid member data.

const TGiim & GetGiim(void) const

Get the variant data.

const TLocal & GetLocal(void) const

Get the variant data.

bool IsLocal(void) const

Check if variant Local is selected.

const TChain_id & GetChain_id(void) const

Get the Chain_id member data.

const TGeneral & GetGeneral(void) const

Get the variant data.

const TPatent & GetPatent(void) const

Get the variant data.

TGibbmt GetGibbmt(void) const

Get the variant data.

const TCit & GetCit(void) const

Get the Cit member data.

bool IsSetName(void) const

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

const TAccession & GetAccession(void) const

Get the Accession member data.

@ e_Gibbmt

Geninfo backbone moltype.

@ e_Giim

Geninfo import id.

@ e_Gibbsq

Geninfo backbone seqid.

@ e_General

for other databases

@ e_Gi

GenInfo Integrated Database.

const TUser & GetUser(void) const

Get the variant data.

TUser & SetUser(void)

Select the variant.

bool IsUser(void) const

Check if variant User is selected.

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

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

const GenericPointer< typename T::ValueType > T2 value

static SLJIT_INLINE sljit_ins msg(sljit_gpr r, sljit_s32 d, sljit_gpr x, sljit_gpr b)

NCBI_DEFINE_ERR_SUBCODE_X(1)

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