xsample08.cpp File Reference

#include <iostream>
#include <utility>
#include <vector>
#include <memory>
#include <cassert>
#include "bm.h"
#include "bmintervals.h"
#include "bmsparsevec_compr.h"
#include "bmundef.h"

Include dependency graph for xsample08.cpp:

Go to the source code of this file.

Data Structures
struct	data_model
	Data frame object, sued to buid succinct data model. More...

Typedefs
typedef bm::interval_enumerator< bm::bvector<> >	interval_enumerator_type
typedef std::vector< std::unique_ptr< bm::bvector<> > >	layout_vector_type
typedef bm::sparse_vector< unsigned char, bm::bvector<> >	sparse_vector_u8
typedef bm::rsc_sparse_vector< unsigned char, sparse_vector_u8 >	rsc_vector_u8
typedef std::vector< std::unique_ptr< rsc_vector_u8 > >	starnds_vector_type

Enumerations
enum	Strand { positive =0 , negative =1 , unknown =2 }

Functions
static void	set_feature_strand (data_model &dm, size_t plane, bm::bvector<>::size_type pos, unsigned char strand)
static void	add_object (data_model &dm, unsigned start, unsigned end, unsigned char strand)
	Register new object in the data model: [start..end] + strand.
static void	splice_model (data_model &dm_target, const data_model &dm, bm::bvector<>::size_type start, bm::bvector<>::size_type end, bool copy_strands)
	Data model splicer.
static void	print_model (const data_model &dm)
	This is ASCII art "renderer" for the data model.
int	main (void)

Typedef Documentation

interval_enumerator_type

typedef bm::interval_enumerator<bm::bvector<> > interval_enumerator_type

Definition at line 64 of file xsample08.cpp.

layout_vector_type

typedef std::vector<std::unique_ptr<bm::bvector<> > > layout_vector_type

Examples

xsample08.cpp.

Definition at line 65 of file xsample08.cpp.

rsc_vector_u8

typedef bm::rsc_sparse_vector<unsigned char, sparse_vector_u8> rsc_vector_u8

Examples

xsample08.cpp.

Definition at line 68 of file xsample08.cpp.

sparse_vector_u8

typedef bm::sparse_vector<unsigned char, bm::bvector<> > sparse_vector_u8

Examples

xsample08.cpp.

Definition at line 67 of file xsample08.cpp.

starnds_vector_type

typedef std::vector<std::unique_ptr<rsc_vector_u8> > starnds_vector_type

Examples

xsample08.cpp.

Definition at line 69 of file xsample08.cpp.

Enumeration Type Documentation

Strand

enum Strand

Enumerator
positive
negative
unknown

Examples

xsample08.cpp.

Definition at line 324 of file xsample08.cpp.

Function Documentation

add_object()

void add_object ( data_model & dm, unsigned start, unsigned end, unsigned char strand )

static

Register new object in the data model: [start..end] + strand.

Examples

xsample08.cpp.

Definition at line 169 of file xsample08.cpp.

References bm::bvector< Alloc >::any_range(), bm::BM_GAP, data_model::layout_v, set_feature_strand(), and bm::bvector< Alloc >::set_range().

Referenced by main().

main()

int main

(

void

)

Definition at line 328 of file xsample08.cpp.

References add_object(), negative, data_model::optimize(), positive, print_model(), splice_model(), and unknown.

print_model()

void print_model ( const data_model & dm )

static

This is ASCII art "renderer" for the data model.

illustrates how to manipulate succinct data model to create graphics

Examples

xsample08.cpp.

Definition at line 269 of file xsample08.cpp.

References bm::interval_enumerator< BV >::advance(), bm::interval_enumerator< BV >::end(), bm::rsc_sparse_vector< Val, SV >::get(), data_model::layout_v, bm::interval_enumerator< BV >::start(), data_model::strand_v, and bm::interval_enumerator< BV >::valid().

Referenced by main().

set_feature_strand()

void set_feature_strand ( data_model & dm, size_t plane, bm::bvector<>::size_type pos, unsigned char strand )

static

Examples

xsample08.cpp.

Definition at line 144 of file xsample08.cpp.

References bm::rsc_sparse_vector< Val, SV >::is_null(), bm::rsc_sparse_vector< Val, SV >::set(), and data_model::strand_v.

Referenced by add_object().

splice_model()

void splice_model ( data_model & dm_target, const data_model & dm, bm::bvector<>::size_type start, bm::bvector<>::size_type end, bool copy_strands )

static

Data model splicer.

Examples

xsample08.cpp.

Definition at line 211 of file xsample08.cpp.

References data_model::add_layout(), data_model::add_strand(), bm::BM_GAP, bm::find_interval_end(), bm::find_interval_start(), data_model::layout_v, and data_model::strand_v.

Referenced by main().