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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/blast__services_8hpp_source.html below:

NCBI C++ ToolKit: include/objtools/blast/services/blast_services.hpp Source File

1 #ifndef ALGO_BLAST_API___REMOTE_SERVICES__HPP 2 #define ALGO_BLAST_API___REMOTE_SERVICES__HPP 61 #define NCBI_MODULE NETBLAST 87 switch

( GetErrCode() ) {

88 case

eArgErr:

return "eArgErr"

;

89 case

eFileErr:

return "eFileErr"

;

90 case

eRequestErr:

return "eRequestErr"

;

118 bool

IsValidBlastDb(

const string

dbname

bool

is_protein);

141

vector< CRef<objects::CBlast4_database_info> >

142

GetDatabaseInfo(

const string

dbname

bool

is_protein,

bool

*found_all,

143

vector<string> *missing_names =

NULL

);

145

vector< CRef<objects::CBlast4_database_info> >

146

GetDatabaseInfoLegacy(

const string

dbname

bool

is_protein,

bool

*found_all,

147

vector<string> *missing_names =

NULL

);

149

vector< CRef<objects::CBlast4_database_info> >

150

GetOrganismSpecificRepeatsDatabases();

155

objects::CBlast4_get_windowmasked_taxids_reply::Tdata

183 bool

target_only =

false

);

218 bool

target_only =

false

);

257 void

x_GetAvailableDatabases();

User-defined methods of the data storage class.

API for Remote Blast Services.

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

CBlastServices & operator=(const CBlastServices &)

Prohibit assignment.

bool m_Verbose

Display verbose output to stdout?

CBlastServices()

Default constructor.

vector< CRef< objects::CSeq_data > > TSeqDataVector

Defines a std::vector of CRef<CSeq_data>

CBlastServices(const CBlastServices &)

Prohibit copy construction.

void GetTaxIdWithWindowMaskerSupport(set< int > &supported_taxids)

This function returns a list of NCBI taxonomy IDs for which there exists windowmasker masking data to...

vector< CRef< objects::CBioseq > > TBioseqVector

Defines a std::vector of CRef<CBioseq>

void SetVerbose(bool value=true)

Analogous to CRemoteBlast::SetVerbose.

objects::CBlast4_get_windowmasked_taxids_reply::Tdata m_WindowMaskedTaxIds

Taxonomy IDs for which there's windowmasker masking data at NCBI.

NCBI_EXCEPTION_DEFAULT(CBlastServicesException, CException)

Include standard NCBI exception behavior.

vector< CRef< objects::CSeq_interval > > TSeqIntervalVector

Defines a std::vector of CRef<CSeq_interval>

vector< CRef< objects::CSeq_id > > TSeqIdVector

Defines a std::vector of CRef<CSeq_id>

objects::CBlast4_get_databases_reply::Tdata m_AvailableDatabases

BLAST databases available to search.

virtual const char * GetErrCodeString() const override

Get a message describing the situation leading to the throw.

@ eArgErr

Argument validation failed.

@ eRequestErr

Request failed.

@ eFileErr

Files were missing or contents were incorrect.

EErrCode

Error types that an application can generate.

virtual const char * GetErrCodeString(void) const

Get error code interpreted as text.

CSeq_loc(void)

constructors

#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.

#define NCBI_XOBJREAD_EXPORT

char * dbname(DBPROCESS *dbproc)

Get name of current database.

use only n Cassandra database for the lookups</td > n</tr > n< tr > n< td > yes</td > n< td > do not use tables BIOSEQ_INFO and BLOB_PROP in the Cassandra database

Names used in blast4 network communications.

const GenericPointer< typename T::ValueType > T2 value

Portable reference counted smart and weak pointers using CWeakRef, CRef, CObject and CObjectEx.

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