global_context_t (reference) in projects: dports

Project(s)

Full Search
Definition
Symbol
File Path
History
Type

Searched refs:global_context_t (Results 1 – 11 of 11) sorted by relevance

/dports/biology/subread/subread-2.0.2-source/src/
H A D	core-junction.h	123 void new_explain_try_replace(global_context_t* global_context, thread_context_t * thread_context, e… 125 int init_junction_tables(global_context_t * context); 126 int destroy_junction_tables(global_context_t * context); 128 int init_junction_thread_contexts(global_context_t * global_context, thread_context_t * thread_cont… 129 int finalise_junction_thread(global_context_t * global_context, thread_context_t * thread_context, … 131 int write_junction_final_results(global_context_t * global_context); 138 unsigned int finalise_explain_CIGAR(global_context_t * global_context, thread_context_t * thread_co… 150 int write_fusion_final_results(global_context_t * global_context); 161 void finalise_structural_variances(global_context_t * global_context); 163 void debug_show_event(global_context_t* global_context, chromosome_event_t * event); [all …]
H A D	core-indel.h	162 int init_indel_tables(global_context_t * context); 163 int destroy_indel_module(global_context_t * context); 165 int sort_global_event_table(global_context_t * global_context); 166 int load_known_junctions(global_context_t * global_context); 169 int write_indel_final_results(global_context_t * context); 175 void remove_neighbour(global_context_t * global_context); 177 int finalise_long_insertions(global_context_t * global_context); 180 void init_global_context(global_context_t * context); 192 int anti_supporting_read_scan(global_context_t * global_context); 196 void init_core_temp_path(global_context_t * context); [all …]
H A D	core.h	593 } global_context_t; typedef 610 int init_modules(global_context_t * context); 613 int destroy_modules(global_context_t * context); 617 int print_configuration(global_context_t * context); 620 int load_global_context(global_context_t * context); 623 int destroy_global_context(global_context_t * context); 627 int read_chunk_circles(global_context_t * context); 631 int write_final_results(global_context_t * context); 685 void absoffset_to_posstr(global_context_t * global_context, unsigned int pos, char * res); 695 int is_pos_in_annotated_exon_regions(global_context_t * global_context, unsigned int pos); [all …]
H A D	core-bigtable.h	14 int init_bigtable_results(global_context_t * global_context, int is_rewind); 19 int bigtable_retrieve_result(global_context_t * global_context , thread_context_t * thread_context … 24 void bigtable_release_result(global_context_t * global_context , thread_context_t * thread_context … 27 int finalise_bigtable_results(global_context_t * global_context); 29 void bigtable_readonly_result(global_context_t * global_context , thread_context_t * thread_context… 47 void bigtable_write_thread_cache(global_context_t * global_context);
H A D	core-bigtable.c	21 void bigtable_lock(global_context_t * global_context){ in bigtable_lock() 25 void bigtable_unlock(global_context_t * global_context){ in bigtable_unlock() 29 unsigned int get_handling_thread_number(global_context_t * global_context , subread_read_number_t p… in get_handling_thread_number() 84 int init_bigtable_results(global_context_t * global_context, int is_rewinding) in init_bigtable_results() 127 mapping_result_t * _global_retrieve_alignment_ptr(global_context_t * global_context, subread_read_n… in _global_retrieve_alignment_ptr() 133 subjunc_result_t * _global_retrieve_subjunc_ptr(global_context_t * global_context, subread_read_num… in _global_retrieve_subjunc_ptr() 143 void bigtable_write_thread_cache(global_context_t * global_context){ in bigtable_write_thread_cache() 149 void wait_occupied(global_context_t * global_context , unsigned long long old_begin){ in wait_occupied() 182 unsigned short * _global_retrieve_big_margin_ptr(global_context_t * global_context, subread_read_nu… in _global_retrieve_big_margin_ptr() 188 void bigtable_release_result(global_context_t * global_context , thread_context_t * thread_context … in bigtable_release_result() [all …]
H A D	SUBindel.c	48 int load_global_context_forindel(global_context_t * context) in load_global_context_forindel() 104 int load_indexes_forindel(global_context_t * global_context) in load_indexes_forindel() 116 int transfer_SAM_to_assembly(global_context_t * global_context) in transfer_SAM_to_assembly() 264 int print_configuration_forindel(global_context_t * global_context) in print_configuration_forindel() 293 int print_summary(global_context_t * global_context) in print_summary() 325 global_context_t * global_context; in main() 333 global_context = (global_context_t*)malloc(sizeof(global_context_t)); in main()
H A D	core.c	344 int show_summary(global_context_t * global_context) in show_summary() 882 global_context_t * global_context; 883 global_context = (global_context_t)malloc(sizeof(global_context_t)); 884 memset(global_context, 0, sizeof(global_context_t)); 1212 int write_final_results(global_context_t context) 3391 global_context_t * global_context = (global_context_t * ) parameters[0]; 3861 int init_paired_votes(global_context_t context) 3869 void write_sam_headers(global_context_t context) 3944 global_context_t * global_context = context; 4256 int init_modules(global_context_t * context) [all …]
H A D	core-indel.c	171 global_context_t * global_context; 182 global_context_t * global_context = atcont -> global_context; in anti_support_thread_run() 456 void remove_neighbour(global_context_t * global_context) in remove_neighbour() 628 int init_indel_tables(global_context_t * context) in init_indel_tables() 1171 global_context_t * global_context = tab->appendix1; in add_annotation_to_junctions() 1229 global_context_t * global_context; 1320 int load_known_junctions(global_context_t * global_context){ in load_known_junctions() 2236 void print_indel_table(global_context_t * global_context){ in print_indel_table() 2340 int destroy_indel_module(global_context_t * global_context) in destroy_indel_module() 4405 void init_global_context(global_context_t * context) in init_global_context() [all …]
H A D	core-junction.c	82 void debug_show_event(global_context_t* global_context, chromosome_event_t * event){ in debug_show_event() 747 int init_junction_tables(global_context_t * context) in init_junction_tables() 764 int destroy_junction_tables(global_context_t * context) in destroy_junction_tables() 4128 int write_fusion_final_results(global_context_t * global_context) in write_fusion_final_results() 4220 global_context_t * global_context = (global_context_t * )tab -> appendix2; in write_inversion_results_final() 4245 global_context_t * global_context = (global_context_t * )tab -> appendix2; in write_translocation_results_final() 4272 int write_junction_final_results(global_context_t * global_context) in write_junction_final_results() 5926 void finalise_translocations(global_context_t * global_context){ in finalise_translocations() 6125 void finalise_inversions(global_context_t * global_context){ in finalise_inversions() 6417 void build_breakpoint_tables(global_context_t * global_context){ in build_breakpoint_tables() [all …]
H A D	core-interface-aligner.c	`256 int parse_opts_aligner(int argc , char ** argv, global_context_t * global_context) in parse_opts_aligner()`
H A D	core-interface-subjunc.c	`251 int parse_opts_subjunc(int argc , char ** argv, global_context_t * global_context) in parse_opts_subjunc()`