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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/tableval_8cpp_source.html below:

NCBI C++ ToolKit: src/app/tableval/tableval.cpp Source File

;

(

);

(

);

Setup(

& args);

ProcessOneFile(

& current_file);

ProcessOneDirectory(

& directory,

&

,

recurse);

m_LogStream(0), m_output(0),

m_comma_separated(

),

m_no_header(

),

m_skip_empty(

),

m_ignore_unknown_types(

)

arg_desc->AddOptionalKey

(

,

,

,

arg_desc->AddOptionalKey

(

,

,

,

arg_desc->AddOptionalKey

(

,

,

,

arg_desc->AddOptionalKey(

,

,

,

arg_desc->AddDefaultKey

arg_desc->AddFlag(

,

);

arg_desc->AddFlag(

,

);

arg_desc->AddFlag(

,

);

arg_desc->AddFlag(

,

);

arg_desc->AddDefaultKey(

,

,

,

,

);

arg_desc->AddFlag(

,

);

arg_desc->AddOptionalKey(

,

,

,

);

arg_desc->AddOptionalKey(

,

,

,

);

arg_desc->AddOptionalKey(

,

,

,

arg_desc->AddOptionalKey(

,

,

,

);

arg_desc->AddFlag(

,

);

prog_description =

;

arg_desc->SetUsageContext(GetArguments().GetProgramBasename(),

prog_description,

);

SetupArgDescriptions(arg_desc.release());

(args[

])

(args[

])

(args[

])

(args[

])

(args[

])

= args[

].AsString();

(args[

])

(args[

])

= &args[

].AsOutputFile();

(!outputdir.

())

directory(args[

].AsString());

masks.

(

+args[

].AsString());

, 0,

,

,

,

(!

.Exists())

+ current_file +

));

unique_ptr<CNcbiOfstream> local_output;

temp_file = current_file.substr(0, current_file.rfind(

));

temp_file +=

;

local_file.

(temp_file);

= local_output.get();

(local_output.get())

unique_ptr<CDir::TEntries>

(e);

(CDir::TEntries::const_iterator it = e->begin(); it != e->end(); it++)

(

.Match((*it)->GetPath()))

(

argc,

* argv[])

ncbi::TMaskedQueryRegions mask

void PrintSupported(CNcbiOstream &out_stream) const

static CColumnValidatorRegistry & GetInstance()

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

Use this because the constructor is protected.

virtual void SetProgressOstream(CNcbiOstream *pProgressOstrm, ENcbiOwnership eNcbiOwnership=eNoOwnership)

This sets the stream to which progress messages are written.

size_t LevelCount(EDiagSev eSev) override

Returns the number of errors seen so far at the given severity.

size_t Count() const override

CNcbiOstream * m_LogStream

void ProcessOneFile(CNcbiIstream &input, CNcbiOstream *output)

void Setup(const CArgs &args)

CRef< CMessageListenerBase > m_logger

CArgValue::TStringArray m_require_one

string m_ResultsDirectory

bool m_ignore_unknown_types

bool ProcessOneDirectory(const CDir &directory, const CMask &mask, bool recurse)

static void RegisterAliases(CNcbiIstream *in_stream)

void ValidateInput(ILineReader &reader, const string &default_columns, const string &required, const string &ignored, const string &unique, const string &discouraged, const vector< string > &require_one)

@ e_tab_ignore_unknown_types

@ e_tab_ignore_empty_rows

void GenerateOutput(CNcbiOstream *out_stream, bool no_headers)

virtual bool PutError(const ILineError &)=0

Store error in the container, and return true if error was stored fine, and return false if the calle...

@ eProblem_GeneralParsingError

Include a standard set of the NCBI C++ Toolkit most basic headers.

static SQLCHAR output[256]

vector< string > TStringArray

Some values types can contain several value lists.

@ fAllowMultiple

Repeated key arguments are legal (use with AddKey)

@ eInputFile

Name of file (must exist and be readable)

@ eString

An arbitrary string.

@ eOutputFile

Name of file (must be writable)

@ eDS_Default

Try standard log file (app.name + ".log") in /log/, use stderr on failure.

@ eDiag_Error

Error message.

@ eDiag_Warning

Warning message.

@ eDiag_Fatal

Fatal error – guarantees exit(or abort)

@ eDiag_Critical

Critical error message.

const string & GetMsg(void) const

Get message string.

virtual bool Remove(TRemoveFlags flags=eRecursive) const

Remove a directory entry.

static string AddTrailingPathSeparator(const string &path)

Add trailing path separator, if needed.

virtual bool Exists(void) const

Check if directory "dirname" exists.

void Reset(const string &path)

Reset path string.

bool Create(TCreateFlags flags=fCreate_Default) const

Create the directory using "dirname" passed in the constructor.

TEntries * GetEntriesPtr(const string &mask=kEmptyStr, TGetEntriesFlags flags=0) const

Get directory entries based on the specified "mask".

const string & GetPath(void) const

Get entry path.

@ fIgnoreRecursive

Suppress "self recursive" elements (the directories "." and "..").

@ fCreateObjects

Create appropriate subclasses of CDirEntry (CFile,CDir,...), not just CDirEntry objects.

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

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

void Reset(void)

Reset reference object.

IO_PREFIX::ofstream CNcbiOfstream

Portable alias for ofstream.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

IO_PREFIX::ifstream CNcbiIfstream

Portable alias for ifstream.

static string & ToLower(string &str)

Convert string to lower case – string& version.

void Run(void)

Enter the main loop.

LOG LOG_cxx2c(void)

Create LOG on top of C++ Toolkit CNcbiDiag.

void CORE_SetREG(REG rg)

Set the registry (no registry if "rg" is passed zero) – to be used by the core internals.

REG REG_cxx2c(IRWRegistry *reg, bool pass_ownership=false)

Convert a C++ Toolkit registry object to a REG registry.

void CORE_SetLOG(LOG lg)

Set the log handle (no logging if "lg" is passed zero) – to be used by the core internals (CORE LOG).

void Add(const string &mask)

Add an inclusion mask.

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

Magic spell ;-) needed for some weird compilers... very empiric.

Classes to match a string against a set of masks.

Defines the CNcbiApplication and CAppException classes for creating NCBI applications.

#define GetArgs

Avoid preprocessor name clash with the NCBI C Toolkit.

Defines command line argument related classes.

Defines unified interface to application:

NCBI C++ stream class wrappers for triggering between "new" and "old" C++ stream libraries.

int main(int argc, const char *argv[])

const char * TABLEVAL_APP_VER

static wxAcceleratorEntry entries[3]

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