Crate hts_sys

source · [−]

Expand description

This module exposes the raw HTSlib bindings for reading and writing genomics file formats like SAM, BAM, CRAM, VCF, BCF and tabix. Instead of using this crate directly, it is recommended to use rust-htslib instead, which has a more idiomatic and high-level API and builds on top of this crate.

Structs

__BindgenBitfieldUnit

__locale_struct

__pthread_internal_list

_bcf_sr_regions_t

cram_block_compression_hdr

cram_block_slice_hdr

htsFormat__bindgen_ty_1

hts_itr_t__bindgen_ty_1

hts_md5_context

hts_pair64_max_t

hts_tpool_process

hts_tpool_result

pthread_cond_t__bindgen_ty_1

pthread_mutex_t___pthread_mutex_s

pthread_rwlock_t__bindgen_ty_1

wait__bindgen_ty_1

wait__bindgen_ty_2

Constants

AIO_PRIO_DELTA_MAX

BAM_CIGAR_SHIFT

BAM_FPROPER_PAIR

BAM_FSUPPLEMENTARY

BAM_USER_OWNS_DATA

BAM_USER_OWNS_STRUCT

BCF_ERR_CTG_INVALID

BCF_ERR_CTG_UNDEF

BCF_ERR_TAG_INVALID

BCF_ERR_TAG_UNDEF

BCF_MAX_BT_INT8

BCF_MAX_BT_INT16

BCF_MAX_BT_INT32

BCF_MIN_BT_INT8

BCF_MIN_BT_INT16

BCF_MIN_BT_INT32

BCF_SR_PAIR_ANY

BCF_SR_PAIR_BOTH

BCF_SR_PAIR_BOTH_REF

BCF_SR_PAIR_EXACT

BCF_SR_PAIR_INDELS

BCF_SR_PAIR_INDEL_REF

BCF_SR_PAIR_SNPS

BCF_SR_PAIR_SNP_REF

BCF_SR_PAIR_SOME

BGZF_BLOCK_SIZE

BGZF_ERR_HEADER

BGZF_ERR_MISUSE

BGZF_MAX_BLOCK_SIZE

CHARCLASS_NAME_MAX

COLLAPSE_INDELS

COLL_WEIGHTS_MAX

ENOTRECOVERABLE

EPROTONOSUPPORT

ESOCKTNOSUPPORT

HAVE___BUILTIN_CLZ

HTS_ALLOW_UNALIGNED

HTS_IDX_SAVE_REMOTE

HTS_IDX_SILENT_FAIL

HTS_PARSE_ONE_COORD

HTS_PARSE_THOUSANDS_SEP

HTS_PATH_SEPARATOR_CHAR

HTS_PATH_SEPARATOR_STR

HTS_RESIZE_CLEAR

INT_LEAST16_MAX

INT_LEAST16_MIN

INT_LEAST32_MAX

INT_LEAST32_MIN

PTHREAD_DESTRUCTOR_ITERATIONS

PTHREAD_KEYS_MAX

PTHREAD_STACK_MIN

SAM_FORMAT_VERSION

UINT_FAST16_MAX

UINT_FAST32_MAX

UINT_LEAST8_MAX

UINT_LEAST16_MAX

UINT_LEAST32_MAX

_BITS_BYTESWAP_H

_BITS_POSIX1_LIM_H

_BITS_POSIX2_LIM_H

_BITS_PTHREADTYPES_H

_BITS_TYPESIZES_H

_G_HAVE_IO_FILE_OPEN

_G_HAVE_IO_GETLINE_INFO

_G_HAVE_LONG_DOUBLE_IO

_G_HAVE_PRINTF_FP

_G_HAVE_SYS_CDEFS

_G_HAVE_SYS_WAIT

_G_IO_IO_FILE_VERSION

_G_NAMES_HAVE_UNDERSCORE

_G_NEED_STDARG_H

_G_USING_THUNKS

_G_VTABLE_LABEL_HAS_LENGTH

_G_VTABLE_LABEL_PREFIX

_IO_CURRENTLY_PUTTING

_IO_DELETE_DONT_CLOSE

_IO_FLAGS2_MMAP

_IO_FLAGS2_NOTCANCEL

_IO_FLAGS2_USER_WBUF

_IO_HAVE_SYS_WAIT

_IO_IS_APPENDING

_IO_TIED_PUT_GET

_IO_UNIFIED_JUMPTABLES

_LIBC_LIMITS_H_

_OLD_STDIO_MAGIC

_POSIX2_BC_BASE_MAX

_POSIX2_BC_DIM_MAX

_POSIX2_BC_SCALE_MAX

_POSIX2_BC_STRING_MAX

_POSIX2_CHARCLASS_NAME_MAX

_POSIX2_COLL_WEIGHTS_MAX

_POSIX2_EXPR_NEST_MAX

_POSIX2_LINE_MAX

_POSIX2_RE_DUP_MAX

_POSIX_AIO_LISTIO_MAX

_POSIX_CHILD_MAX

_POSIX_CLOCKRES_MIN

_POSIX_C_SOURCE

_POSIX_DELAYTIMER_MAX

_POSIX_HOST_NAME_MAX

_POSIX_LINK_MAX

_POSIX_LOGIN_NAME_MAX

_POSIX_MAX_CANON

_POSIX_MAX_INPUT

_POSIX_MQ_OPEN_MAX

_POSIX_MQ_PRIO_MAX

_POSIX_NAME_MAX

_POSIX_NGROUPS_MAX

_POSIX_OPEN_MAX

_POSIX_PATH_MAX

_POSIX_PIPE_BUF

_POSIX_RE_DUP_MAX

_POSIX_RTSIG_MAX

_POSIX_SEM_NSEMS_MAX

_POSIX_SEM_VALUE_MAX

_POSIX_SIGQUEUE_MAX

_POSIX_SSIZE_MAX

_POSIX_STREAM_MAX

_POSIX_SYMLINK_MAX

_POSIX_SYMLOOP_MAX

_POSIX_THREAD_DESTRUCTOR_ITERATIONS

_POSIX_THREAD_KEYS_MAX

_POSIX_THREAD_THREADS_MAX

_POSIX_TIMER_MAX

_POSIX_TTY_NAME_MAX

_POSIX_TZNAME_MAX

_SIGSET_H_types

_STRUCT_TIMEVAL

_SYS_SYSMACROS_H

__BIT_TYPES_DEFINED__

__FLOAT_WORD_ORDER

__GLIBC_HAVE_LONG_LONG

__GLIBC_MINOR__

__GNU_LIBRARY__

__LITTLE_ENDIAN

__PRIPTR_PREFIX

__PTHREAD_MUTEX_HAVE_PREV

__SIZEOF_PTHREAD_ATTR_T

__SIZEOF_PTHREAD_BARRIERATTR_T

__SIZEOF_PTHREAD_BARRIER_T

__SIZEOF_PTHREAD_CONDATTR_T

__SIZEOF_PTHREAD_COND_T

__SIZEOF_PTHREAD_MUTEXATTR_T

__SIZEOF_PTHREAD_MUTEX_T

__SIZEOF_PTHREAD_RWLOCKATTR_T

__SIZEOF_PTHREAD_RWLOCK_T

__STDC_IEC_559_COMPLEX__

__STDC_IEC_559__

__STDC_ISO_10646__

__USE_FORTIFY_LEVEL

__USE_POSIX199309

__USE_POSIX199506

__USE_POSIX_IMPLICITLY

__WORDSIZE_COMPAT32

____FILE_defined

____gwchar_t_defined

__clock_t_defined

__clockid_t_defined

__codecvt_result___codecvt_error

__codecvt_result___codecvt_noconv

__codecvt_result___codecvt_ok

__codecvt_result___codecvt_partial

__ldiv_t_defined

__lldiv_t_defined

__mbstate_t_defined

__time_t_defined

__timer_t_defined

__timespec_defined

bcf_int8_missing

bcf_int8_vector_end

bcf_int16_missing

bcf_int16_vector_end

bcf_int32_missing

bcf_int32_vector_end

bcf_int64_missing

bcf_int64_vector_end

bcf_sr_error_api_usage_error

bcf_sr_error_bcf_read_error

bcf_sr_error_file_type_error

bcf_sr_error_header_error

bcf_sr_error_idx_load_failed

bcf_sr_error_no_eof

bcf_sr_error_no_memory

bcf_sr_error_not_bgzf

bcf_sr_error_open_failed

bcf_sr_error_vcf_parse_error

bcf_sr_opt_t_BCF_SR_PAIR_LOGIC

bcf_sr_opt_t_BCF_SR_REQUIRE_IDX

bcf_str_missing

bcf_str_vector_end

cram_block_method_BM_ERROR

cram_block_method_BZIP2

cram_block_method_GZIP

cram_block_method_GZIP_RLE

cram_block_method_LZMA

cram_block_method_RANS

cram_block_method_RANS0

cram_block_method_RANS1

cram_block_method_RAW

cram_content_type_COMPRESSION_HEADER

cram_content_type_CORE

cram_content_type_CT_ERROR

cram_content_type_EXTERNAL

cram_content_type_FILE_HEADER

cram_content_type_MAPPED_SLICE

cram_content_type_UNMAPPED_SLICE

fai_format_options_FAI_FASTA

fai_format_options_FAI_FASTQ

fai_format_options_FAI_NONE

fai_load_options_FAI_CREATE

htsCompression_bgzf

htsCompression_bzip2_compression

htsCompression_compression_maximum

htsCompression_custom

htsCompression_gzip

htsCompression_no_compression

htsExactFormat_bai

htsExactFormat_bam

htsExactFormat_bcf

htsExactFormat_bed

htsExactFormat_binary_format

htsExactFormat_crai

htsExactFormat_cram

htsExactFormat_csi

htsExactFormat_empty_format

htsExactFormat_fai_format

htsExactFormat_fasta_format

htsExactFormat_fastq_format

htsExactFormat_format_maximum

htsExactFormat_fqi_format

htsExactFormat_gzi

htsExactFormat_htsget

htsExactFormat_json

htsExactFormat_sam

htsExactFormat_tbi

htsExactFormat_text_format

htsExactFormat_unknown_format

htsExactFormat_vcf

htsFormatCategory_category_maximum

htsFormatCategory_index_file

htsFormatCategory_region_list

htsFormatCategory_sequence_data

htsFormatCategory_unknown_category

htsFormatCategory_variant_data

htsLogLevel_HTS_LOG_DEBUG

htsLogLevel_HTS_LOG_ERROR

htsLogLevel_HTS_LOG_INFO

htsLogLevel_HTS_LOG_OFF

htsLogLevel_HTS_LOG_TRACE

htsLogLevel_HTS_LOG_WARNING

hts_fmt_option_CRAM_OPT_BASES_PER_SLICE

hts_fmt_option_CRAM_OPT_DECODE_MD

hts_fmt_option_CRAM_OPT_EMBED_REF

hts_fmt_option_CRAM_OPT_IGNORE_MD5

hts_fmt_option_CRAM_OPT_LOSSY_NAMES

hts_fmt_option_CRAM_OPT_MULTI_SEQ_PER_SLICE

hts_fmt_option_CRAM_OPT_NO_REF

hts_fmt_option_CRAM_OPT_NTHREADS

hts_fmt_option_CRAM_OPT_PREFIX

hts_fmt_option_CRAM_OPT_RANGE

hts_fmt_option_CRAM_OPT_REFERENCE

hts_fmt_option_CRAM_OPT_REQUIRED_FIELDS

hts_fmt_option_CRAM_OPT_SEQS_PER_SLICE

hts_fmt_option_CRAM_OPT_SHARED_REF

hts_fmt_option_CRAM_OPT_SLICES_PER_CONTAINER

hts_fmt_option_CRAM_OPT_STORE_MD

hts_fmt_option_CRAM_OPT_STORE_NM

hts_fmt_option_CRAM_OPT_THREAD_POOL

hts_fmt_option_CRAM_OPT_USE_BZIP2

hts_fmt_option_CRAM_OPT_USE_LZMA

hts_fmt_option_CRAM_OPT_USE_RANS

hts_fmt_option_CRAM_OPT_VERBOSITY

hts_fmt_option_CRAM_OPT_VERSION

hts_fmt_option_HTS_OPT_BLOCK_SIZE

hts_fmt_option_HTS_OPT_CACHE_SIZE

hts_fmt_option_HTS_OPT_COMPRESSION_LEVEL

hts_fmt_option_HTS_OPT_NTHREADS

hts_fmt_option_HTS_OPT_THREAD_POOL

sam_fields_SAM_AUX

sam_fields_SAM_CIGAR

sam_fields_SAM_FLAG

sam_fields_SAM_MAPQ

sam_fields_SAM_PNEXT

sam_fields_SAM_POS

sam_fields_SAM_QNAME

sam_fields_SAM_QUAL

sam_fields_SAM_RGAUX

sam_fields_SAM_RNAME

sam_fields_SAM_RNEXT

sam_fields_SAM_SEQ

sam_fields_SAM_TLEN

Statics

Functions

_IO_flockfile^⚠

_IO_free_backup_area^⚠

_IO_ftrylockfile^⚠

_IO_funlockfile^⚠

_IO_peekc_locked^⚠

_IO_seekoff^⚠

_IO_seekpos^⚠

_IO_vfprintf^⚠

_IO_vfscanf^⚠

__assert_fail^⚠

__assert_perror_fail^⚠

__ctype_get_mb_cur_max^⚠

__errno_location^⚠

__secure_getenv^⚠

__underflow^⚠

a64l^⚠

abs^⚠

atof^⚠

atoi^⚠

atol^⚠

bam_auxB_len^⚠

bam_aux_append^⚠

bam_aux_del^⚠

bam_aux_get^⚠

bam_aux_update_array^⚠

bam_aux_update_float^⚠

bam_aux_update_int^⚠

bam_aux_update_str^⚠

bam_cigar2qlen^⚠

bam_cigar2rlen^⚠

bam_destroy1^⚠

bam_flag2str^⚠

bam_hdr_read^⚠

bam_hdr_write^⚠

bam_mplp64_auto^⚠

bam_mplp_auto^⚠

bam_mplp_constructor^⚠

bam_mplp_destroy^⚠

bam_mplp_destructor^⚠

bam_mplp_init^⚠

bam_mplp_init_overlaps^⚠

bam_mplp_reset^⚠

bam_mplp_set_maxcnt^⚠

bam_plp64_auto^⚠

bam_plp64_next^⚠

bam_plp_auto^⚠

bam_plp_constructor^⚠

bam_plp_destroy^⚠

bam_plp_destructor^⚠

bam_plp_init^⚠

bam_plp_insertion^⚠

bam_plp_next^⚠

bam_plp_push^⚠

bam_plp_reset^⚠

bam_plp_set_maxcnt^⚠

bam_set_qname^⚠

bam_str2flag^⚠

bcf_add_filter^⚠

bcf_calc_ac^⚠

bcf_destroy^⚠

bcf_enc_vchar^⚠

bcf_enc_vfloat^⚠

bcf_enc_vint^⚠

bcf_fmt_array^⚠

bcf_fmt_sized_array^⚠

bcf_get_fmt^⚠

bcf_get_fmt_id^⚠

bcf_get_format_string^⚠

bcf_get_format_values^⚠

bcf_get_info^⚠

bcf_get_info_id^⚠

bcf_get_info_values^⚠

bcf_get_variant_type^⚠

bcf_get_variant_types^⚠

bcf_gt_type^⚠

bcf_has_filter^⚠

bcf_hdr_add_hrec^⚠

bcf_hdr_add_sample^⚠

bcf_hdr_append^⚠

bcf_hdr_combine^⚠

bcf_hdr_destroy^⚠

bcf_hdr_dup^⚠

bcf_hdr_fmt_text^⚠

bcf_hdr_format^⚠

bcf_hdr_get_hrec^⚠

bcf_hdr_get_version^⚠

bcf_hdr_id2int^⚠

bcf_hdr_init^⚠

bcf_hdr_merge^⚠

bcf_hdr_parse^⚠

bcf_hdr_parse_line^⚠

bcf_hdr_printf^⚠

bcf_hdr_read^⚠

bcf_hdr_remove^⚠

bcf_hdr_seqnames^⚠

bcf_hdr_set^⚠

bcf_hdr_set_samples^⚠

bcf_hdr_set_version^⚠

bcf_hdr_subset^⚠

bcf_hdr_sync^⚠

bcf_hdr_write^⚠

bcf_hrec_add_key^⚠

bcf_hrec_destroy^⚠

bcf_hrec_dup^⚠

bcf_hrec_find_key^⚠

bcf_hrec_format^⚠

bcf_hrec_set_val^⚠

bcf_idx_init^⚠

bcf_idx_save^⚠

bcf_index_build^⚠

bcf_index_build2^⚠

bcf_index_build3^⚠

bcf_index_load2^⚠

bcf_index_load3^⚠

bcf_readrec^⚠

bcf_remove_allele_set^⚠

bcf_remove_alleles^⚠

bcf_remove_filter^⚠

bcf_sr_add_reader^⚠

bcf_sr_destroy^⚠

bcf_sr_destroy_threads^⚠

bcf_sr_init^⚠

bcf_sr_next_line^⚠

bcf_sr_regions_destroy^⚠

bcf_sr_regions_flush^⚠

bcf_sr_regions_init^⚠

bcf_sr_regions_next^⚠

bcf_sr_regions_overlap^⚠

bcf_sr_regions_seek^⚠

bcf_sr_remove_reader^⚠

bcf_sr_seek^⚠

bcf_sr_set_opt^⚠

bcf_sr_set_regions^⚠

bcf_sr_set_samples^⚠

bcf_sr_set_targets^⚠

bcf_sr_set_threads^⚠

bcf_sr_strerror^⚠

bcf_subset_format^⚠

bcf_translate^⚠

bcf_trim_alleles^⚠

bcf_update_alleles^⚠

bcf_update_alleles_str^⚠

bcf_update_filter^⚠

bcf_update_format^⚠

bcf_update_format_string^⚠

bcf_update_id^⚠

bcf_update_info^⚠

bcmp^⚠

bgzf_block_write^⚠

bgzf_check_EOF^⚠

bgzf_compress^⚠

bgzf_compression^⚠

bgzf_flush_try^⚠

bgzf_getline^⚠

bgzf_index_build_init^⚠

bgzf_index_dump^⚠

bgzf_index_dump_hfile^⚠

bgzf_index_load^⚠

bgzf_index_load_hfile^⚠

bgzf_is_bgzf^⚠

bgzf_raw_read^⚠

bgzf_raw_write^⚠

bgzf_read_block^⚠

bgzf_set_cache_size^⚠

bgzf_thread_pool^⚠

clearerr_unlocked^⚠

cram_block_append^⚠

cram_block_get_comp_size^⚠

cram_block_get_content_id^⚠

cram_block_get_content_type^⚠

cram_block_get_crc32^⚠

cram_block_get_data^⚠

cram_block_get_offset^⚠

cram_block_get_uncomp_size^⚠

cram_block_set_comp_size^⚠

cram_block_set_content_id^⚠

cram_block_set_crc32^⚠

cram_block_set_data^⚠

cram_block_set_offset^⚠

cram_block_set_uncomp_size^⚠

cram_block_size^⚠

cram_block_update_size^⚠

cram_check_EOF^⚠

cram_compress_block^⚠

cram_container_get_landmarks^⚠

cram_container_get_length^⚠

cram_container_get_num_blocks^⚠

cram_container_is_empty^⚠

cram_container_set_landmarks^⚠

cram_container_set_length^⚠

cram_container_set_num_blocks^⚠

cram_container_size^⚠

cram_copy_slice^⚠

cram_fd_get_fp^⚠

cram_fd_get_header^⚠

cram_fd_get_version^⚠

cram_fd_set_fp^⚠

cram_fd_set_header^⚠

cram_fd_set_version^⚠

cram_free_block^⚠

cram_free_container^⚠

cram_get_refs^⚠

cram_major_vers^⚠

cram_minor_vers^⚠

cram_new_block^⚠

cram_new_container^⚠

cram_read_block^⚠

cram_read_container^⚠

cram_set_header^⚠

cram_set_option^⚠

cram_set_voption^⚠

cram_store_container^⚠

cram_transcode_rg^⚠

cram_uncompress_block^⚠

cram_write_block^⚠

cram_write_container^⚠

div^⚠

ecvt^⚠

errmod_destroy^⚠

errmod_init^⚠

exit^⚠

fai_destroy^⚠

fai_fetch64^⚠

fai_fetchqual^⚠

fai_fetchqual64^⚠

fai_load3_format^⚠

fai_load_format^⚠

fai_parse_region^⚠

fai_set_cache_size^⚠

faidx_fetch_nseq^⚠

faidx_fetch_qual^⚠

faidx_fetch_qual64^⚠

faidx_fetch_seq^⚠

faidx_fetch_seq64^⚠

faidx_has_seq^⚠

faidx_seq_len^⚠

fcvt^⚠

feof^⚠

feof_unlocked^⚠

ferror_unlocked^⚠

fflush_unlocked^⚠

ffs^⚠

fgetc_unlocked^⚠

fileno_unlocked^⚠

fputc_unlocked^⚠

fread_unlocked^⚠

free^⚠

ftrylockfile^⚠

funlockfile^⚠

fwrite_unlocked^⚠

gcvt^⚠

getc^⚠

getc_unlocked^⚠

getchar_unlocked^⚠

gets^⚠

getw^⚠

gnu_dev_major^⚠

gnu_dev_makedev^⚠

gnu_dev_minor^⚠

hrec_add_idx^⚠

hts_check_EOF^⚠

hts_detect_format^⚠

hts_file_type^⚠

hts_format_description^⚠

hts_format_file_extension^⚠

hts_get_bgzfp^⚠

hts_get_format^⚠

hts_get_log_level^⚠

hts_getline^⚠

hts_idx_destroy^⚠

hts_idx_finish^⚠

hts_idx_fmt^⚠

hts_idx_get_meta^⚠

hts_idx_get_n_no_coor^⚠

hts_idx_get_stat^⚠

hts_idx_init^⚠

hts_idx_load^⚠

hts_idx_load2^⚠

hts_idx_load3^⚠

hts_idx_push^⚠

hts_idx_save^⚠

hts_idx_save_as^⚠

hts_idx_seqnames^⚠

hts_idx_set_meta^⚠

hts_idx_tbi_name^⚠

hts_itr_destroy^⚠

hts_itr_multi_bam^⚠

hts_itr_multi_cram^⚠

hts_itr_multi_next^⚠

hts_itr_next^⚠

hts_itr_query^⚠

hts_itr_querys^⚠

hts_itr_regions^⚠

hts_md5_destroy^⚠

hts_md5_final^⚠

hts_md5_hex^⚠

hts_md5_init^⚠

hts_md5_reset^⚠

hts_md5_update^⚠

hts_open_format^⚠

hts_opt_add^⚠

hts_opt_apply^⚠

hts_opt_free^⚠

hts_parse_decimal^⚠

hts_parse_format^⚠

hts_parse_opt_list^⚠

hts_parse_reg^⚠

hts_parse_reg64^⚠

hts_parse_region^⚠

hts_readlines^⚠

hts_readlist^⚠

hts_reglist_create^⚠

hts_reglist_free^⚠

hts_resize_array_^⚠

hts_set_cache_size^⚠

hts_set_fai_filename^⚠

hts_set_log_level^⚠

hts_set_opt^⚠

hts_set_thread_pool^⚠

hts_set_threads^⚠

hts_tpool_delete_result^⚠

hts_tpool_destroy^⚠

hts_tpool_dispatch^⚠

hts_tpool_dispatch2^⚠

hts_tpool_dispatch3^⚠

hts_tpool_init^⚠

hts_tpool_kill^⚠

hts_tpool_next_result^⚠

hts_tpool_next_result_wait^⚠

hts_tpool_process_attach^⚠

hts_tpool_process_destroy^⚠

hts_tpool_process_detach^⚠

hts_tpool_process_empty^⚠

hts_tpool_process_flush^⚠

hts_tpool_process_init^⚠

hts_tpool_process_len^⚠

hts_tpool_process_qsize^⚠

hts_tpool_process_ref_decr^⚠

hts_tpool_process_ref_incr^⚠

hts_tpool_process_reset^⚠

hts_tpool_process_shutdown^⚠

hts_tpool_process_sz^⚠

hts_tpool_result_data^⚠

hts_tpool_size^⚠

hts_tpool_wake_dispatch^⚠

hts_version^⚠

initstate_r^⚠

int32_put_blk^⚠

kbs_destroy^⚠

ksplit_core^⚠

l64a^⚠

labs^⚠

ldiv^⚠

open_memstream^⚠

posix_memalign^⚠

probaln_glocal^⚠

putc^⚠

putc_unlocked^⚠

putchar_unlocked^⚠

puts^⚠

putw^⚠

rand^⚠

sam_cap_mapq^⚠

sam_format1^⚠

sam_hdr_add_line^⚠

sam_hdr_add_lines^⚠

sam_hdr_add_pg^⚠

sam_hdr_change_HD^⚠

sam_hdr_count_lines^⚠

sam_hdr_destroy^⚠

sam_hdr_dup^⚠

sam_hdr_find_line_id^⚠

sam_hdr_find_line_pos^⚠

sam_hdr_find_tag_id^⚠

sam_hdr_find_tag_pos^⚠

sam_hdr_incr_ref^⚠

sam_hdr_init^⚠

sam_hdr_length^⚠

sam_hdr_line_index^⚠

sam_hdr_line_name^⚠

sam_hdr_name2tid^⚠

sam_hdr_nref^⚠

sam_hdr_parse^⚠

sam_hdr_pg_id^⚠

sam_hdr_read^⚠

sam_hdr_remove_except^⚠

sam_hdr_remove_line_id^⚠

sam_hdr_remove_line_pos^⚠

sam_hdr_remove_lines^⚠

sam_hdr_remove_tag_id^⚠

sam_hdr_str^⚠

sam_hdr_tid2len^⚠

sam_hdr_tid2name^⚠

sam_hdr_update_line^⚠

sam_hdr_write^⚠

sam_idx_init^⚠

sam_idx_save^⚠

sam_index_build^⚠

sam_index_build2^⚠

sam_index_build3^⚠

sam_index_load^⚠

sam_index_load2^⚠

sam_index_load3^⚠

sam_itr_queryi^⚠

sam_itr_querys^⚠

sam_itr_regarray^⚠

sam_itr_regions^⚠

sam_open_mode^⚠

sam_open_mode_opts^⚠

sam_parse_region^⚠

sam_prob_realn^⚠

stringify_argv^⚠

strncasecmp^⚠

tbx_destroy^⚠

tbx_index_build^⚠

tbx_index_build2^⚠

tbx_index_build3^⚠

tbx_index_load^⚠

tbx_index_load2^⚠

tbx_index_load3^⚠

tbx_name2id^⚠

tbx_readrec^⚠

tbx_seqnames^⚠

vcf_hdr_read^⚠

vcf_hdr_write^⚠

vcf_write_line^⚠

Type Definitions

__builtin_va_list

__codecvt_result

__pthread_list_t

bcf_sr_regions_t

cram_block_method

cram_content_type

fai_format_options

fai_load_options

htsFormatCategory

hts_itr_multi_query_func

hts_itr_multi_t

hts_itr_query_func

hts_readrec_func

pthread_spinlock_t

Unions

__mbstate_t__bindgen_ty_1

bcf_info_t__bindgen_ty_1

htsFile__bindgen_ty_1

hts_opt__bindgen_ty_1

pthread_barrier_t

pthread_barrierattr_t

pthread_condattr_t

pthread_mutex_t

pthread_mutexattr_t

pthread_rwlock_t

pthread_rwlockattr_t