blast_vdb_cmd.cpp File Reference

#include <ncbi_pch.hpp>
#include <corelib/ncbiapp.hpp>
#include <objmgr/util/sequence.hpp>
#include <algo/blast/vdb/vdb2blast_util.hpp>
#include <algo/blast/api/blast_usage_report.hpp>
#include <algo/blast/blastinput/blast_input_aux.hpp>
#include <algo/blast/blastinput/blast_input.hpp>
#include <algo/blast/vdb/vdbalias.hpp>

Include dependency graph for blast_vdb_cmd.cpp:

Go to the source code of this file.

Go to the SVN repository for this file.

Classes
class	CBlastVdbCmdApp
	The application class. More...
class	CVdbFastaExtractor
	Class to extract FASTA (as returned by the blast_sra library) from SRA data. More...

Functions
	USING_SCOPE (blast)
string	s_GetCSRADBs (const string &db_list, string &not_csra_list)
void	s_PrintStr (const string &str, unsigned int line_width, CNcbiOstream &out)
int	main (int argc, const char *argv[])

Variables
	USING_NCBI_SCOPE
static const NStr::TNumToStringFlags	kFlags = NStr::fWithCommas

Function Documentation

main()

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

Definition at line 781 of file blast_vdb_cmd.cpp.

References CNcbiApplicationAPI::AppMain(), and eDS_Default.

s_GetCSRADBs()

string s_GetCSRADBs	(	const string &	db_list,
		string &	not_csra_list
	)

Definition at line 306 of file blast_vdb_cmd.cpp.

References i, CVDBBlastUtil::IsCSRA(), kEmptyStr, and NStr::Split().

Referenced by CBlastVdbCmdApp::x_GetVDBBlastUtil(), and CBlastVdbCmdApp::x_PrintBlastDatabaseInformation().

s_PrintStr()

void s_PrintStr	(	const string &	str,
		unsigned int	line_width,
		CNcbiOstream &	out
	)

Definition at line 521 of file blast_vdb_cmd.cpp.

References ITERATE, out(), str(), and NStr::Wrap().

Referenced by CBlastVdbCmdApp::x_PrintBlastDatabaseInformation().

USING_SCOPE()

USING_SCOPE

(

blast

)

Variable Documentation

kFlags

const NStr::TNumToStringFlags kFlags = NStr::fWithCommas

static

Definition at line 44 of file blast_vdb_cmd.cpp.

Referenced by BOOST_AUTO_TEST_CASE(), CVDBGraphDataLoader_Impl::GetChunkOnce(), CPsgClientApp::Init(), CAckAlertProcessor::Process(), ReadFastaFileMap(), CBlastDBCmdApp::x_PrintBlastDatabaseInformation(), and CBlastVdbCmdApp::x_PrintBlastDatabaseInformation().

USING_NCBI_SCOPE

USING_NCBI_SCOPE

Definition at line 41 of file blast_vdb_cmd.cpp.