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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/hitfilter__app_8hpp_source.html below:

NCBI C++ ToolKit: src/app/hfilter/hitfilter_app.hpp Source File

1 #ifndef ALGO_ALIGN_NW_DEMO_HFILTER_HITFILTER_APP__HPP 2 #define ALGO_ALIGN_NW_DEMO_HFILTER_HITFILTER_APP__HPP 94 void

x_ReadInputHits(

THitRefs

* phitrefs,

bool

one_pair =

false

);

99 const double

& min_idty)

const

;

100 void

x_DumpOutput(

const THitRefs

& hitrefs);

104 void

x_DoPairwise(

THitRefs

* pall);

105 void

x_DoMultiple(

THitRefs

* pall);

virtual const char * GetErrCodeString(void) const override

Get error code interpreted as text.

NCBI_EXCEPTION_DEFAULT(CAppHitFilterException, CException)

list< CRef< objects::CSeq_align > > TSeqAlignList

vector< THitRef > THitRefs

map< string, string > TMapIds

map< string, SBuildIDs > TMapIdPairs

static void x_LoadConstraints(string constraintfile, vector< CMultiAlignerOptions::SConstraint > &constr)

TErrCode GetErrCode(void) const

Get error code.

EErrCode

Error types that an application can generate.

virtual const char * GetErrCodeString(void) const

Get error code interpreted as text.

#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.

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

void Run(void)

Enter the main loop.

where boath are integers</td > n< td ></td > n</tr > n< tr > n< td > tse</td > n< td > optional</td > n< td > String</td > n< td class=\"description\"> TSE option controls what blob is smart and slim</td> n<td> orig</td> n</tr> n<tr> n<td> last_modified</td> n<td> optional</td> n<td> Integer</td> n<td class=\"description\"> The blob last modification If provided then the exact match will be requested with n the Cassandra storage corresponding field value</td> n<td> Positive integer Not provided means that the most recent match will be selected</td> n<td></td> n</tr> n<tr> n<td> use_cache</td> n<td> optional</td> n<td> String</td> n<td class=\"description\"> The option controls if the Cassandra LMDB cache and or database should be used It n affects the seq id resolution step and the blob properties lookup step The following n options are BIOSEQ_INFO and BLOB_PROP at all

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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