|
Gamgee
You miserable little maggot. I'll stove your head in!
|
All Classes Namespaces Files Functions Variables Typedefs Enumerations Enumerator Friends Macros Pages
|
Gamgee
You miserable little maggot. I'll stove your head in!
|
#include <cram_structs.h>
Public Attributes | |
| struct hFILE * | fp |
| int | mode |
| int | version |
| cram_file_def * | file_def |
| SAM_hdr * | header |
| char * | prefix |
| int | record_counter |
| int | slice_num |
| int | err |
| cram_container * | ctr |
| int | first_base |
| int | last_base |
| refs_t * | refs |
| char * | ref |
| char * | ref_free |
| int | ref_id |
| int | ref_start |
| int | ref_end |
| char * | ref_fn |
| int | level |
| cram_metrics * | m [DS_END] |
| int | decode_md |
| int | verbose |
| int | seqs_per_slice |
| int | slices_per_container |
| int | embed_ref |
| int | no_ref |
| int | ignore_md5 |
| int | use_bz2 |
| int | use_rans |
| int | use_lzma |
| int | shared_ref |
| unsigned int | required_fields |
| cram_range | range |
| unsigned int | bam_flag_swap [0x1000] |
| unsigned int | cram_flag_swap [0x1000] |
| unsigned char | L1 [256] |
| unsigned char | L2 [256] |
| char | cram_sub_matrix [32][32] |
| int | index_sz |
| cram_index * | index |
| off_t | first_container |
| int | eof |
| int | last_slice |
| int | multi_seq |
| int | unsorted |
| int | empty_container |
| int | own_pool |
| t_pool * | pool |
| t_results_queue * | rqueue |
| pthread_mutex_t | metrics_lock |
| pthread_mutex_t | ref_lock |
| spare_bams * | bl |
| pthread_mutex_t | bam_list_lock |
| void * | job_pending |
| int | ooc |
| unsigned int cram_fd::bam_flag_swap[0x1000] |
| pthread_mutex_t cram_fd::bam_list_lock |
| spare_bams* cram_fd::bl |
| unsigned int cram_fd::cram_flag_swap[0x1000] |
| char cram_fd::cram_sub_matrix[32][32] |
| cram_container* cram_fd::ctr |
| int cram_fd::decode_md |
| int cram_fd::embed_ref |
| int cram_fd::empty_container |
| int cram_fd::eof |
| int cram_fd::err |
| cram_file_def* cram_fd::file_def |
| int cram_fd::first_base |
| off_t cram_fd::first_container |
| struct hFILE* cram_fd::fp |
| SAM_hdr* cram_fd::header |
| int cram_fd::ignore_md5 |
| cram_index* cram_fd::index |
| int cram_fd::index_sz |
| void* cram_fd::job_pending |
| unsigned char cram_fd::L1[256] |
| unsigned char cram_fd::L2[256] |
| int cram_fd::last_base |
| int cram_fd::last_slice |
| int cram_fd::level |
| cram_metrics* cram_fd::m[DS_END] |
| pthread_mutex_t cram_fd::metrics_lock |
| int cram_fd::mode |
| int cram_fd::multi_seq |
| int cram_fd::no_ref |
| int cram_fd::ooc |
| int cram_fd::own_pool |
| t_pool* cram_fd::pool |
| char* cram_fd::prefix |
| cram_range cram_fd::range |
| int cram_fd::record_counter |
| char* cram_fd::ref |
| int cram_fd::ref_end |
| char* cram_fd::ref_fn |
| char * cram_fd::ref_free |
| int cram_fd::ref_id |
| pthread_mutex_t cram_fd::ref_lock |
| int cram_fd::ref_start |
| refs_t* cram_fd::refs |
| unsigned int cram_fd::required_fields |
| t_results_queue* cram_fd::rqueue |
| int cram_fd::seqs_per_slice |
| int cram_fd::shared_ref |
| int cram_fd::slice_num |
| int cram_fd::slices_per_container |
| int cram_fd::unsorted |
| int cram_fd::use_bz2 |
| int cram_fd::use_lzma |
| int cram_fd::use_rans |
| int cram_fd::verbose |
| int cram_fd::version |
1.8.8