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

& autoSqlColCounter)

readingTable =

;

, name, description;

autoSqlColCounter,

, name, description));

readingTable =

;

(

==

) {

readingTable =

;

autoSqlColCounter(0);

(!istr.eof()) {

(line.empty() && istr.good()) {

std::getline(istr, line);

mWellKnownFields.SetLocation(

columnData, mBedFlags, feat, messageHandler) &&

mWellKnownFields.SetTitle(

columnData, feat, messageHandler) &&

mWellKnownFields.SetRegion(

columnData, feat, messageHandler) &&

mWellKnownFields.SetDisplayData(

columnData, mBedFlags, feat, messageHandler) &&

mCustomFields.SetUserObject(

columnData, mBedFlags, feat, messageHandler);

( !mWellKnownFields.Validate(messageHandler) ||

!mCustomFields.Validate(messageHandler)) {

(mColumnCount != mWellKnownFields.NumFields() + mCustomFields.NumFields()) {

);

messageHandler.Report(

);

void Append(const CAutoSqlCustomField &)

CAutoSqlStandardFields mWellKnownFields

size_t ColumnCount() const

bool ReadSeqFeat(const CBedColumnData &, CSeq_feat &feat, CReaderMessageHandler &) const

static bool xParseAutoSqlColumnDef(const string &, string &, string &, string &)

CAutoSqlCustomFields mCustomFields

string xReadLine(CNcbiIstream &)

map< string, string > mParameters

bool Validate(CReaderMessageHandler &) const

void xProcessLine(const string &line, bool &readingTable, size_t &autoSqlColCounter)

bool Load(CNcbiIstream &, CReaderMessageHandler &)

namespace ncbi::objects::

The NCBI C++ standard methods for dealing with std::string.

static void fatal(const char *msg,...)

@ eDiag_Error

Error message.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

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

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

static void TruncateSpacesInPlace(string &str, ETrunc where=eTrunc_Both)

Truncate whitespace in a string (in-place)

static string & Replace(const string &src, const string &search, const string &replace, string &dst, SIZE_TYPE start_pos=0, SIZE_TYPE max_replace=0, SIZE_TYPE *num_replace=0)

Replace occurrences of a substring within a 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 unsigned int StringToUInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to unsigned int.

static string TruncateSpaces(const string &str, ETrunc where=eTrunc_Both)

Truncate whitespace in a string.

static string & ToLower(string &str)

Convert string to lower case – string& version.

@ fSplit_MergeDelimiters

Merge adjacent delimiters.

The blob sat and sat key Both must be positive integers</td > n< td > Non empty string The interpretation of the blob id depends on a processor Cassandra n processor expects the following format

const struct ncbi::grid::netcache::search::fields::KEY key

const GenericPointer< typename T::ValueType > T2 value

bool ProcessTableRow(size_t, const string &, const string &)

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