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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/bed__autosql__custom_8cpp_source.html below:

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

colIndex,

,

name,

description):

mDescription(description)

openBracket =

.find(

);

(openBracket != string::npos) {

&

,

(

) +

+

+

+

);

messageHandler.

(warning);

&

,

(

) +

+

+

+

);

messageHandler.

(warning);

&

,

vector<string> intStrs;

vector<int> realInts;

intStrs.begin(), intStrs.end(),

std::back_inserter(realInts),

[] (

&

) ->

{ return NStr::StringToInt(str);} );

(

) +

+

+

+

);

messageHandler.

(warning);

&

,

&

,

uintVal = 0;

(

) +

+

+

+

);

messageHandler.

(warning);

&

,

xHandleSpecialCaseRgb(columnData, bedFlags, uo, messageHandler);

(mFormat !=

&& mFormat !=

) {

vector<string> knownRgbKeys = {

,

,

};

lowerName(mName);

isRgbKey = (find(knownRgbKeys.begin(), knownRgbKeys.end(), lowerName) !=

(mColIndex != 8 && !isRgbKey) {

valueStr = columnData[mColIndex];

(

) + mName +

+

valueStr +

);

messageHandler.Report(warning);

uo.AddField(mName, intVal);

(rgb.size() == 3) {

(

) + mName +

+

valueStr +

);

messageHandler.Report(warning);

uo.AddField(mName, rgbInt);

(xHandleSpecialCases(columnData, bedFlags, uo, messageHandler)) {

valueStr = columnData[mColIndex];

mName, valueStr, columnData.LineNo(), bedFlags, uo, messageHandler);

(mFormatHandlers.find(mFormat) == mFormatHandlers.end()) {

(

) + mFormat +

+ mName +

);

messageHandler.Report(warning);

.push_back(columnInfo);

newUserObject {

};

pDisplayData = feat.FindExt(

);

pDisplayData->SetType().SetStr(

);

newUserObject =

;

(

& fieldInfo: mFields) {

(! fieldInfo.SetUserField(

columnData, bedFlags, *pDisplayData, messageHandler)) {

feat.SetExts().push_back(pDisplayData);

(

& field: mFields) {

(!field.Validate(messageHandler)) {

void transform(Container &c, UnaryFunction *op)

bool Validate(CReaderMessageHandler &) const

static bool AddUint(const string &, const string &, unsigned int, int, CUser_object &, CReaderMessageHandler &)

static FormatHandlers mFormatHandlers

bool SetUserField(const CBedColumnData &, int bedFlags, CUser_object &, CReaderMessageHandler &) const

static bool AddUintArray(const string &, const string &, unsigned int, int, CUser_object &, CReaderMessageHandler &)

bool xHandleSpecialCases(const CBedColumnData &, int bedFlags, CUser_object &, CReaderMessageHandler &) const

static bool AddString(const string &, const string &, unsigned int, int, CUser_object &, CReaderMessageHandler &)

static bool AddDouble(const string &, const string &, unsigned int, int, CUser_object &, CReaderMessageHandler &)

static bool AddInt(const string &, const string &, unsigned int, int, CUser_object &, CReaderMessageHandler &)

static bool AddIntArray(const string &, const string &, unsigned int, int, CUser_object &, CReaderMessageHandler &)

CAutoSqlCustomField(size_t colIndex, string format, string name, string description)

bool xHandleSpecialCaseRgb(const CBedColumnData &, int bedFlags, CUser_object &, CReaderMessageHandler &) const

vector< CAutoSqlCustomField > mFields

bool Validate(CReaderMessageHandler &) const

bool SetUserObject(const CBedColumnData &, int bedFlags, CSeq_feat &, CReaderMessageHandler &) const

void Append(const CAutoSqlCustomField &)

void Report(const CReaderMessage &)

namespace ncbi::objects::

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

const_iterator end() const

const_iterator find(const key_type &key) const

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

static const char * str(char *buf, int n)

@ eDiag_Warning

Warning message.

CRef< C > Ref(C *object)

Helper functions to get CRef<> and CConstRef<> objects.

int64_t Int8

8-byte (64-bit) signed integer

#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.

static int StringToInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to int.

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 bool EndsWith(const CTempString str, const CTempString end, ECase use_case=eCase)

Check if a string ends with a specified suffix value.

static double StringToDouble(const CTempStringEx str, TStringToNumFlags flags=0)

Convert string to double.

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

Check if a string starts with a specified prefix value.

static void TrimSuffixInPlace(string &str, const CTempString suffix, ECase use_case=eCase)

Trim suffix from a string (in-place)

static unsigned int StringToUInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to unsigned int.

static string & ToLower(string &str)

Convert string to lower case – string& version.

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

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