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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/datatool_8cpp_source.html below:

NCBI C++ ToolKit: src/serial/datatool/datatool.cpp Source File

67 #define NCBI_USE_ERRCODE_X Serial_DataTool 83

}

catch

(exception& e) {

103

d->SetUsageContext(

"datatool"

"work with ASN.1/XML data"

);

106

d->AddKey(

"m"

"moduleFile"

110

d->AddDefaultKey(

"M"

"externalModuleFile"

111 "external module file(s)"

115 "ignore unresolved symbols"

);

116

d->AddOptionalKey(

"f"

"moduleFile"

117 "write ASN.1 module file"

119

d->AddOptionalKey(

"fx"

"dtdFile"

120 "write DTD file (\"-fx m\" writes modular DTD file)"

122

d->AddOptionalKey(

"fxs"

"XMLSchemaFile"

123 "write XML Schema file (\"-fxs m\" writes modular Schema file)"

125

d->AddOptionalKey(

"fjs"

"JSONSchemaFile"

126 "write JSON Schema file"

128

d->AddOptionalKey(

"fd"

"SpecificationDump"

129 "write specification dump file (datatool internal format)"

131

d->AddOptionalKey(

"ms"

"moduleSuffix"

132 "suffix of modular DTD or Schema file name"

136

d->AddOptionalKey(

"v"

"valueFile"

137 "read value in ASN.1 text format"

139

d->AddOptionalKey(

"vx"

"valueFile"

140 "read value in XML format"

142

d->AddOptionalKey(

"vj"

"valueFile"

143 "read value in JSON format"

145

d->AddOptionalKey(

"d"

"valueFile"

146 "read value in ASN.1 binary format (-t is required)"

148

d->AddOptionalKey(

"tvs"

"traversalSpecFile"

149 "read traversal specification file"

151

d->AddOptionalKey(

"t"

"type"

152 "binary value type (see \"-d\" argument)"

154

d->AddOptionalKey(

"dn"

"filename"

155 "DTD module name in XML header (no extension). " 156 "If empty, omit DOCTYPE line."

159 "read value completely into memory"

);

160

d->AddOptionalKey(

"p"

"valueFile"

161 "write value in ASN.1 text format"

163

d->AddOptionalKey(

"px"

"valueFile"

164 "write value in XML format"

166

d->AddOptionalKey(

"pj"

"valueFile"

167 "write value in JSON format"

169

d->AddOptionalKey(

"xmlns"

"namespaceName"

170 "XML namespace name"

172

d->AddOptionalKey(

"e"

"valueFile"

173 "write value in ASN.1 binary format"

176 "no scope prefixes in XML output"

);

178 "no scope prefixes in XML input"

);

181

d->AddOptionalKey(

"oex"

"exportSpec"

182 "class export specifier for MSVC"

184

d->AddOptionalKey(

"od"

"defFile"

185 "code definition file"

188 "silently ignore absent code definition file"

);

190 "issue a warning about absent code definition file"

);

192 "generate sample definition file"

);

193

d->AddOptionalKey(

"of"

"listFile"

194 "write list of generated C++ files"

196

d->AddOptionalKey(

"oc"

"basename"

197 "write combining C++ files"

200 "generate C++ files for all types"

);

201

d->AddOptionalKey(

"ot"

"types"

202 "generate C++ files for listed types"

204

d->AddOptionalKey(

"ox"

"types"

205 "exclude listed types from generation"

208 "turn off recursive type generation"

);

210

d->AddOptionalKey(

"on"

"namespace"

211 "default namespace"

214

d->AddOptionalKey(

"opm"

"directory"

215 "directory for searching source modules"

217

d->AddOptionalKey(

"oph"

"directory"

218 "directory for generated *.hpp files"

220

d->AddOptionalKey(

"opc"

"directory"

221 "directory for generated *.cpp files"

224

d->AddOptionalKey(

"or"

"prefix"

225 "add prefix to generated file names"

228 "use quoted syntax form for generated include files"

);

230 "add source file dir to generated file names"

);

232 "add module name to generated file names"

);

234 "combine all -or* prefixes"

);

236 "create \".cvsignore\" files"

);

237

d->AddOptionalKey(

"oR"

"rootDirectory"

238 "set \"-o*\" arguments for NCBI directory tree"

242 "turn on generation of DOXYGEN-style comments"

);

243

d->AddOptionalKey(

"odx"

"URL"

244 "URL of documentation root folder (for DOXYGEN)"

246

d->AddFlag(

"lax_syntax"

247 "allow non-standard ASN.1 syntax accepted by asntool"

);

248

d->AddOptionalKey(

"pch"

"file"

249 "name of the precompiled header to include in all *.cpp files"

260 if

(

const CArgValue

& od = args[

"od"

] )

263

list<string> modulesPath;

268 if

(!style.empty()) {

269

vector<string> values;

271 for

(

const string

& v : values) {

292 const string

& rootDir = opt;

295 string

srcDir =

Path

(rootDir,

"src"

);

297

modulesPath.push_back(srcDir);

309

modulesPath, args[

"m"

].GetStringList(),

false

);

313

modulesPath, args[

"M"

].GetStringList(),

true

, srctype);

316 if

( args[

"sxo"

] ) {

329 if

(

const CArgValue

& fx = args[

"fx"

] ) {

333 if

( fx.AsString() ==

"m"

) {

346 if

(

const CArgValue

& ax = args[

"fxs"

] ) {

350 if

( ax.AsString() ==

"m"

) {

362 if

(

const CArgValue

& ax = args[

"fjs"

] ) {

368 if

( !args[

"i"

] ) {

382 bool

stdXmlIn =

false

;

383 if

( args[

"sxi"

] ) {

386 bool

stdXmlOut =

false

;

387 if

( args[

"sxo"

] ) {

396 if

(

const CArgValue

& v = args[

"v"

] ) {

400 else if

(

const CArgValue

& vx = args[

"vx"

] ) {

404 else if

(

const CArgValue

& vj = args[

"vj"

] ) {

408 else if

(

const CArgValue

& d = args[

"d"

] ) {

410 ERR_POST_X

(3,

"ASN.1 value type must be specified (-t)"

);

419

unique_ptr<CObjectIStream>

432

typeName =

.AsString();

433 if

(typeName !=

"?"

) {

434 in

->ReadFileHeader();

438

typeName =

->ReadFileHeader();

440

typeName =

"JsonValue"

;

444 bool

type_guessed =

false

;

445 if

(typeName !=

"?"

) {

448 string

alt_name(typeName);

456 if

(alt_name.find(

'_'

) == string::npos) {

468

type_guessed =

true

;

472 if

(matching_types.

size

() == 0) {

474

}

else if

(matching_types.

size

() == 1) {

475

typeInfo = *matching_types.

begin

();

477 string msg

(

"Multiple typeinfo matches:"

);

479 msg

" "

+ (*ti)->GetName();

483 in

->ReadFileHeader();

492 bool

use_nsName =

false

;

495 if

(

const CArgValue

& p = args[

"p"

] ) {

499 else if

(

const CArgValue

& px = args[

"px"

] ) {

502 if

(

const CArgValue

& px_ns = args[

"xmlns"

] ) {

504

nsName = px_ns.AsString();

507 else if

(

const CArgValue

& pj = args[

"pj"

] ) {

511 else if

(

const CArgValue

& e = args[

"e"

] ) {

516 if

(typeName ==

"?"

) {

517

cout <<

"Data type: "

<< typeInfo->

GetName

() << endl;

523 bool

readFull =

bool

(args[

"F"

]);

526

unique_ptr<CObjectOStream>

537 if

(!nsName.empty()) {

542 if

(

const CArgValue

& dn = args[

"dn"

] ) {

543 const string

& name = dn.AsString();

544 if

( name.empty() ) {

563 if

->EndOfData()) {

570 prev

.insert(typeInfo);

572 for

(

bool

go=

true

; go && !

->EndOfData(); ) {

574

matching =

->GuessDataType(

,2);

575 if

(matching.

empty

()) {

576

matching =

->GuessDataType(known_types,16);

578 if

(matching.

size

() == 1) {

579

typeInfo = *matching.

begin

();

581 prev

.insert(typeInfo);

587

copier.

Copy

(typeInfo);

625 bool

generation_requested =

false

;

630

generation_requested =

true

;

636

generation_requested =

true

;

665

root =

"https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source"

;

686

}

else if

(opt ==

"-"

) {

692 const string

& fileName = opt;

724 if

(generation_requested) {

726 ERR_POST_X

(5,

"*** Datatool code generation failed"

);

747

traversal_spec_file );

748 ERR_POST_X

(2,

Info

"Total seconds to generate traversal code: "

<< total_code_generation_stop_watch.

Restart

() );

749

}

catch

( exception &ex ) {

750

cerr <<

"Exception: "

<< ex.what() << endl;

758 CFileSet

& fileSet,

const

list<string>& modulesPath,

778 if

(names_done.

find

(name) != names_done.

end

()) {

782 if

( !name.empty() ) {

783

names_done.

insert

(name);

785

moduleType = fName.

GetType

();

792

srctype = moduleType;

797

moduleType = srctype;

800 else if

(moduleType != srctype) {

802 "Unable to process modules of different types" 803 " simultaneously: "

+name);

807 switch

(moduleType) {

bool AllowIDsEndingWithMinus(void) const

AutoPtr< CFileModules > Modules(const string &fileName)

static void SetExportSpecifier(const string &str)

static void SetDoxygenComments(bool set)

static void SetDoxygenGroup(const string &str)

static void SetDocRootURL(const string &str)

void UseQuotedForm(bool use)

const string & GetCPPDir(void) const

void ResolveImportRefs(void)

void SetFileNamePrefix(const string &prefix)

void LoadConfig(CNcbiIstream &in)

CFileSet & GetMainModules(void)

bool HaveGenerateTypes(void) const

void SetDoxygenIngroup(const string &str)

void ExcludeRecursion(bool exclude=true)

virtual const CMemoryRegistry & GetConfig(void) const override

void SetRootDir(const string &dir)

void SetHPPDir(const string &dir)

void SetFileNamePrefixSource(EFileNamePrefixSource source)

void ExcludeTypes(const string &types)

void SetCPPDir(const string &dir)

void SetFileListFileName(const string &file)

bool GetOpt(const string &opt, string *value=0)

void SetDefaultNamespace(const string &ns)

void SetCombiningFileName(const string &file)

void UndoGenerateCode(void)

void ResetDefaultNamespace(void)

void CreateCvsignore(bool create)

CFileSet & GetImportModules(void)

void IncludeAllMainTypes(void)

void IncludeTypes(const string &types)

void SetDoxygenGroupDescription(const string &str)

static void SetModuleFileSuffix(const string &suffix)

static void EnableDTDEntities(bool enable=true)

static void SetSourceDataSpec(EDataSpec spec)

static EDataSpec GetSourceDataSpec(void)

static void SetEnforcedStdXml(bool set=true)

static void SetPchHeader(const string &name)

void PrintDTD(CNcbiOstream &out) const

void CollectAllTypeinfo(set< TTypeInfo > &types) const

void PrintSpecDump(CNcbiOstream &out) const

void PrintJSONSchema(CNcbiOstream &out) const

void AddFile(const AutoPtr< CFileModules > &moduleSet)

void PrintXMLSchema(CNcbiOstream &out) const

void PrintDTDModular(void) const

CDataType * ResolveInAnyModule(const string &fullName, bool allowInternal=false) const

void PrintXMLSchemaModular(void) const

void PrintSampleDEF(const string &rootdir) const

void PrintASN(CNcbiOstream &out) const

Root class for all serialization exceptions.

CTypeInfo class contains all information about C++ types (both basic and classes): members and layout...

AutoPtr< CFileModules > Modules(const string &fileName)

EType GetType(void) const

string GetFileName(void) const

iterator_bool insert(const value_type &val)

const_iterator begin() const

const_iterator find(const key_type &key) const

const_iterator end() const

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

std::ofstream out("events_result.xml")

main entry point for tests

string Path(const string &dir, const string &file)

static const struct name_t names[]

static DLIST_TYPE *DLIST_NAME() prev(DLIST_LIST_TYPE *list, DLIST_TYPE *item)

virtual const CArgs & GetArgs(void) const

Get parsed command line arguments.

int AppMain(int argc, const char *const *argv, const char *const *envp=0, EAppDiagStream diag=eDS_Default, const char *conf=NcbiEmptyCStr, const string &name=NcbiEmptyString)

Main function (entry point) for the NCBI application.

virtual void SetupArgDescriptions(CArgDescriptions *arg_desc)

Setup the command line argument descriptions.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

const string & GetProgramDisplayName(void) const

Get the application's "display" name.

const CVersionAPI & GetFullVersion(void) const

Get the program version information.

void SetVersion(const CVersionInfo &version)

Set the version number for the program.

virtual CNcbiIstream & AsInputFile(TFileFlags flags=0) const =0

Get the argument as an input file stream.

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)

EDiagSev SetDiagPostLevel(EDiagSev post_sev=eDiag_Error)

Set the threshold severity for posting the messages.

#define ERR_POST_X(err_subcode, message)

Error posting with default error code and given error subcode.

@ eDS_Default

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

@ eDiag_Warning

Warning message.

TErrCode GetErrCode(void) const

Get error code.

#define NCBI_THROW(exception_class, err_code, message)

Generic macro to throw an exception, given the exception class, error code and message string.

#define NCBI_RETHROW_SAME(prev_exception, message)

Generic macro to re-throw the same exception.

void Warning(CExceptionArgs_Base &args)

static bool EnableBackgroundReporting(bool enable)

Enable background reporting.

virtual const char * what(void) const noexcept

Standard report (includes full backlog).

void Info(CExceptionArgs_Base &args)

ESerialDataFormat

Data file format.

@ eSerial_AsnText

ASN.1 text.

@ eSerial_AsnBinary

ASN.1 binary.

void SetDefaultStringEncoding(EEncoding enc)

Set default encoding of 'string' objects If XML data encoding is different, string will be converted ...

void SetReferenceSchema(bool use_schema=true)

Make generated XML document reference XML schema.

void SetReferenceDTD(bool use_dtd=true)

Make generated XML document reference DTD.

static CObjectOStream * Open(ESerialDataFormat format, CNcbiOstream &outStream, bool deleteOutStream)

Create serial object writer and attach it to an output stream.

void SetDefaultStringEncoding(EEncoding enc)

Set default encoding of 'string' objects If XML data encoding is different, string will be converted ...

static CObjectIStream * Open(ESerialDataFormat format, CNcbiIstream &inStream, bool deleteInStream)

Create serial object reader and attach it to an input stream.

void SetDTDFileName(const string &filename)

Set DTD or schema file name.

void SetEnforcedStdXml(bool set=true)

Set up scope prefixes handling.

void SetEnforcedStdXml(bool set=true)

Set up scope prefixes handling.

void SetDefaultSchemaNamespace(const string &schema_ns)

Set default value of namespace name of generated DTD documents.

void Copy(const CObjectTypeInfo &type)

Copy data.

@ eEOF

Unexpected end-of-file.

virtual const string & Get(const string &section, const string &name, TFlags flags=0) const

Get the parameter value.

bool Empty(TFlags flags=fAllLayers) const

Verify if Registry is empty.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define USING_NCBI_SCOPE

For using NCBI namespace code.

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

static int CompareNocase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-insensitive compare of a substring with another string.

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

Replace occurrences of a substring within a string.

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

Truncate whitespace in a string.

@ fSplit_Tokenize

All delimiters are merged and trimmed, to get non-empty tokens only.

@ fSplit_MergeDelimiters

Merge adjacent delimiters.

double Restart(void)

Return time elapsed since first Start() or last Restart() call (in seconds).

@ eStart

Start timer immediately after creating.

const string & GetName(void) const

Get name of this type.

string Print(const string &appname, TPrintFlags flags=fPrintAll) const

Print version data, plain text.

@ fVersionInfo

Print version info.

Definition of all error codes used in serial libraries (xser.lib, xcser.lib).

@ eFileName_UseAllPrefixes

@ eFileName_FromSourceFileName

@ eFileName_FromModuleName

const GenericPointer< typename T::ValueType > T2 value

Defines command line argument related classes.

std::istream & in(std::istream &in_, double &x_)

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

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

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