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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/objextract_8cpp_source.html below:

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

(

);

(

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arg_desc->SetUsageContext(

().GetProgramBasename(),

);

arg_desc->AddDefaultKey(

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arg_desc->AddDefaultKey(

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arg_desc->SetConstraint(

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arg_desc->AddDefaultKey(

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arg_desc->SetConstraint(

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));

arg_desc->AddDefaultKey(

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arg_desc->AddDefaultKey(

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arg_desc->SetConstraint(

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arg_desc->AddDefaultKey(

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arg_desc->SetConstraint(

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));

CSeq_entry::GetTypeInfo();

CBioseq::GetTypeInfo();

CBioseq_set::GetTypeInfo();

CSeq_annot::GetTypeInfo();

CSeq_align_set::GetTypeInfo();

= args[

].AsString();

(

==

) {

}

(

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) {

}

(

==

) {

* itype = CSeq_entry::GetTypeInfo();

= args[

].AsString();

= args[

].AsString();

(

==

) {

}

(

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}

(

==

) {

* otype = CSeq_entry::GetTypeInfo();

= args[

].AsString();

<<

<< otype->

()

<<

<< itype->

());

(itype == CBioseq_set::GetTypeInfo() &&

otype == CSeq_entry::GetTypeInfo()) {

(

argc,

* argv[])

Interface for handling Seq-entry objects.

CGBReleaseFile is a utility class to ease the processing of Genbank release files one Seq-entry at a ...

void RegisterHandler(ISeqEntryHandler *handler)

Register handler.

void Read(void)

Read the release file.

handler for GenBank release files

CGbEntryHandler(CObjectOStream &ostr)

bool HandleSeqEntry(CRef< CSeq_entry > &entry)

user code for handling a Seq-entry goes here.

a simple read hook - when it finds its object, it reads it in and dumps it to the stream

void ReadObject(CObjectIStream &istr, const CObjectInfo &object)

This method will be called at approriate time when the object of requested type is to be read.

CReadHookWriter(const CTypeInfo *info, CObjectOStream &ostr)

const CTypeInfo * m_TypeInfo

Read hook for a standalone object.

Base class for all serializable objects.

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

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

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.

const CNcbiArguments & GetArguments(void) const

Get the application's cached unprocessed command-line arguments.

@ eInputFile

Name of file (must exist and be readable)

@ eString

An arbitrary string.

@ eOutputFile

Name of file (must be writable)

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

void SetDiagStream(CNcbiOstream *os, bool quick_flush=true, FDiagCleanup cleanup=0, void *cleanup_data=0, const string &stream_name="")

Set diagnostic stream.

@ eDS_Default

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

void Error(CExceptionArgs_Base &args)

virtual const CTypeInfo * GetThisTypeInfo(void) const =0

ESerialDataFormat

Data file format.

@ eSerial_AsnText

ASN.1 text.

@ eSerial_AsnBinary

ASN.1 binary.

void DefaultRead(CObjectIStream &in, const CObjectInfo &object)

Default read.

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

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

void Write(const CConstObjectInfo &object)

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

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

void SetDiscardCurrObject(bool discard=true)

Discard the object, which has been just read.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

const string & GetName(void) const

Get name of this type.

static TTypeInfo GetClassInfoByName(const string &name)

TObjectPtr Create(CObjectMemoryPool *memoryPool=0) const

Create object of this type on heap (can be deleted by operator delete)

Defines the CNcbiApplication and CAppException classes for creating NCBI applications.

Defines command line argument related classes.

Defines unified interface to application:

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