cram_container Struct Reference

Detailed description

Definition at line 295 of file cram_structs.h.

#include <cram_structs.h>

Public Methods
	khash_t (s_i2i)*tags_used

Public Members
int32_t	length
int32_t	ref_seq_id
int32_t	ref_seq_start
int32_t	ref_seq_span
int32_t	record_counter
int64_t	num_bases
int32_t	num_records
int32_t	num_blocks
int32_t	num_landmarks
int32_t *	landmark
size_t	offset
cram_block_compression_hdr *	comp_hdr
cram_block *	comp_hdr_block
int	max_slice
int	curr_slice
int	max_rec
int	curr_rec
int	max_c_rec
int	curr_c_rec
int	slice_rec
int	curr_ref
int	last_pos
struct cram_slice **	slices
struct cram_slice *	slice
int	pos_sorted
int	max_apos
int	last_slice
int	multi_seq
int	unsorted
int	ref_start
int	first_base
int	last_base
int	ref_id
int	ref_end
char *	ref
bam_seq_t **	bams
cram_stats *	TS_stats
cram_stats *	RG_stats
cram_stats *	FP_stats
cram_stats *	NS_stats
cram_stats *	RN_stats
cram_stats *	CF_stats
cram_stats *	TN_stats
cram_stats *	BA_stats
cram_stats *	TV_stats
cram_stats *	BS_stats
cram_stats *	FC_stats
cram_stats *	BF_stats
cram_stats *	AP_stats
cram_stats *	NF_stats
cram_stats *	MF_stats
cram_stats *	FN_stats
cram_stats *	RL_stats
cram_stats *	DL_stats
cram_stats *	TC_stats
cram_stats *	TL_stats
cram_stats *	MQ_stats
cram_stats *	TM_stats
cram_stats *	QS_stats
cram_stats *	NP_stats
cram_stats *	RI_stats
cram_stats *	RS_stats
cram_stats *	PD_stats
cram_stats *	HC_stats
int *	refs_used

Member Function Documentation

cram_container::khash_t

(

s_i2i

)

Member Data Documentation

cram_stats* cram_container::AP_stats

Definition at line 349 of file cram_structs.h.

cram_stats* cram_container::BA_stats

Definition at line 344 of file cram_structs.h.

bam_seq_t** cram_container::bams

Definition at line 334 of file cram_structs.h.

cram_stats* cram_container::BF_stats

Definition at line 348 of file cram_structs.h.

cram_stats* cram_container::BS_stats

Definition at line 346 of file cram_structs.h.

cram_stats* cram_container::CF_stats

Definition at line 342 of file cram_structs.h.

cram_block_compression_hdr* cram_container::comp_hdr

Definition at line 311 of file cram_structs.h.

cram_block* cram_container::comp_hdr_block

Definition at line 312 of file cram_structs.h.

int cram_container::curr_c_rec

Definition at line 317 of file cram_structs.h.

int cram_container::curr_rec

Definition at line 316 of file cram_structs.h.

int cram_container::curr_ref

Definition at line 319 of file cram_structs.h.

int cram_container::curr_slice

Definition at line 315 of file cram_structs.h.

cram_stats* cram_container::DL_stats

Definition at line 354 of file cram_structs.h.

cram_stats* cram_container::FC_stats

Definition at line 347 of file cram_structs.h.

int cram_container::first_base

Definition at line 329 of file cram_structs.h.

cram_stats* cram_container::FN_stats

Definition at line 352 of file cram_structs.h.

cram_stats* cram_container::FP_stats

Definition at line 339 of file cram_structs.h.

cram_stats* cram_container::HC_stats

Definition at line 364 of file cram_structs.h.

int32_t* cram_container::landmark

Definition at line 305 of file cram_structs.h.

int cram_container::last_base

Definition at line 329 of file cram_structs.h.

int cram_container::last_pos

Definition at line 320 of file cram_structs.h.

int cram_container::last_slice

Definition at line 324 of file cram_structs.h.

int32_t cram_container::length

Definition at line 296 of file cram_structs.h.

int cram_container::max_apos

Definition at line 323 of file cram_structs.h.

int cram_container::max_c_rec

Definition at line 317 of file cram_structs.h.

int cram_container::max_rec

Definition at line 316 of file cram_structs.h.

int cram_container::max_slice

Definition at line 315 of file cram_structs.h.

cram_stats* cram_container::MF_stats

Definition at line 351 of file cram_structs.h.

cram_stats* cram_container::MQ_stats

Definition at line 357 of file cram_structs.h.

int cram_container::multi_seq

Definition at line 325 of file cram_structs.h.

cram_stats* cram_container::NF_stats

Definition at line 350 of file cram_structs.h.

cram_stats* cram_container::NP_stats

Definition at line 360 of file cram_structs.h.

cram_stats* cram_container::NS_stats

Definition at line 340 of file cram_structs.h.

int64_t cram_container::num_bases

Definition at line 301 of file cram_structs.h.

int32_t cram_container::num_blocks

Definition at line 303 of file cram_structs.h.

int32_t cram_container::num_landmarks

Definition at line 304 of file cram_structs.h.

int32_t cram_container::num_records

Definition at line 302 of file cram_structs.h.

size_t cram_container::offset

Definition at line 308 of file cram_structs.h.

cram_stats* cram_container::PD_stats

Definition at line 363 of file cram_structs.h.

int cram_container::pos_sorted

Definition at line 322 of file cram_structs.h.

cram_stats* cram_container::QS_stats

Definition at line 359 of file cram_structs.h.

int32_t cram_container::record_counter

Definition at line 300 of file cram_structs.h.

char* cram_container::ref

Definition at line 330 of file cram_structs.h.

int cram_container::ref_end

Definition at line 329 of file cram_structs.h.

int cram_container::ref_id

Definition at line 329 of file cram_structs.h.

int32_t cram_container::ref_seq_id

Definition at line 297 of file cram_structs.h.

int32_t cram_container::ref_seq_span

Definition at line 299 of file cram_structs.h.

int32_t cram_container::ref_seq_start

Definition at line 298 of file cram_structs.h.

int cram_container::ref_start

Definition at line 329 of file cram_structs.h.

int* cram_container::refs_used

Definition at line 367 of file cram_structs.h.

cram_stats* cram_container::RG_stats

Definition at line 338 of file cram_structs.h.

cram_stats* cram_container::RI_stats

Definition at line 361 of file cram_structs.h.

cram_stats* cram_container::RL_stats

Definition at line 353 of file cram_structs.h.

cram_stats* cram_container::RN_stats

Definition at line 341 of file cram_structs.h.

cram_stats* cram_container::RS_stats

Definition at line 362 of file cram_structs.h.

struct cram_slice * cram_container::slice

Definition at line 321 of file cram_structs.h.

int cram_container::slice_rec

Definition at line 318 of file cram_structs.h.

struct cram_slice** cram_container::slices

Definition at line 321 of file cram_structs.h.

cram_stats* cram_container::TC_stats

Definition at line 355 of file cram_structs.h.

cram_stats* cram_container::TL_stats

Definition at line 356 of file cram_structs.h.

cram_stats* cram_container::TM_stats

Definition at line 358 of file cram_structs.h.

cram_stats* cram_container::TN_stats

Definition at line 343 of file cram_structs.h.

cram_stats* cram_container::TS_stats

Definition at line 337 of file cram_structs.h.

cram_stats* cram_container::TV_stats

Definition at line 345 of file cram_structs.h.

int cram_container::unsorted

Definition at line 326 of file cram_structs.h.

---

The documentation for this struct was generated from the following file:

• E:/git/nvbio/contrib/htslib/cram/cram_structs.h