NCBI C++ ToolKit
Classes | Typedefs | Functions | Variables
bam_utils.cpp File Reference
#include <ncbi_pch.hpp>
#include <gui/packages/pkg_sequence/bam_utils.hpp>
#include <objects/seq/Annot_descr.hpp>
#include <objects/seq/Annotdesc.hpp>
#include <objects/general/Object_id.hpp>
#include <sra/readers/bam/bamgraph.hpp>
#include <sra/readers/bam/bamread.hpp>
#include <sra/readers/bam/bamindex.hpp>
#include <gui/objutils/gencoll_svc.hpp>
#include <objtools/readers/idmapper.hpp>
#include <objects/seqres/Seq_graph.hpp>
#include <objmgr/object_manager.hpp>
#include <gui/objects/assembly_info.hpp>
#include <util/thread_pool.hpp>
#include <mutex>
+ Include dependency graph for bam_utils.cpp:

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Classes

struct  SCoverageData
 
class  CCreateCoverageTask
 

Typedefs

typedef struct SCoverageData SCoverageData
 

Functions

 USING_SCOPE (objects)
 
static CRef< CSeq_ids_GetRefSeq_id (const string &id_str)
 
static void s_UpdateField (CUser_object &uo, const string &name, const string &value)
 

Variables

static const string kBAM_coverage = "BAM coverage"
 
static const string kSourceFile = "SourceFile"
 
static const string kIndexFile = "IndexFile"
 
static const string kAssembly = "Assembly"
 

Typedef Documentation

◆ SCoverageData

typedef struct SCoverageData SCoverageData

Function Documentation

◆ s_GetRefSeq_id()

static CRef<CSeq_id> s_GetRefSeq_id ( const string id_str)
static

◆ s_UpdateField()

static void s_UpdateField ( CUser_object uo,
const string name,
const string value 
)
static

◆ USING_SCOPE()

USING_SCOPE ( objects  )

Variable Documentation

◆ kAssembly

const string kAssembly = "Assembly"
static

◆ kBAM_coverage

const string kBAM_coverage = "BAM coverage"
static

◆ kIndexFile

const string kIndexFile = "IndexFile"
static

◆ kSourceFile

const string kSourceFile = "SourceFile"
static
Modified on Wed Apr 17 13:09:57 2024 by modify_doxy.py rev. 669887