Searched refs:cigar_action (Results 1 – 4 of 4) sorted by relevance
57 static Cigar_action_T cigar_action; variable1540 if (cigar_action == CIGAR_ACTION_IGNORE) { in print_overlap_sam_line()1544 } else if (cigar_action == CIGAR_ACTION_WARNING) { in print_overlap_sam_line()1547 } else if (cigar_action == CIGAR_ACTION_NOPRINT) { in print_overlap_sam_line()1850 cigar_action = cigar_action_in; in Simplepair_setup()
498 static Cigar_action_T cigar_action = CIGAR_ACTION_WARNING; variable2172 cigar_action = CIGAR_ACTION_IGNORE; in parse_command_line()2174 cigar_action = CIGAR_ACTION_WARNING; in parse_command_line()2176 cigar_action = CIGAR_ACTION_NOPRINT; in parse_command_line()2178 cigar_action = CIGAR_ACTION_ABORT; in parse_command_line()3474 sam_cigar_extended_p,cigar_action); in worker_setup()
434 static Cigar_action_T cigar_action = CIGAR_ACTION_WARNING; variable5965 cigar_action = CIGAR_ACTION_IGNORE; in parse_command_line()5967 cigar_action = CIGAR_ACTION_WARNING; in parse_command_line()5969 cigar_action = CIGAR_ACTION_NOPRINT; in parse_command_line()5971 cigar_action = CIGAR_ACTION_ABORT; in parse_command_line()7023 gff3_phase_swap_p,cdstype,sam_cigar_extended_p,cigar_action); in main()
157 static Cigar_action_T cigar_action; variable179 cigar_action = cigar_action_in; in Pair_setup()5855 if (cigar_action == CIGAR_ACTION_IGNORE) { in print_sam_line()5859 } else if (cigar_action == CIGAR_ACTION_WARNING) { in print_sam_line()5862 } else if (cigar_action == CIGAR_ACTION_NOPRINT) { in print_sam_line()