Searched refs:aug_cigar (Results 1 – 7 of 7) sorted by relevance
89 aug_cigar.push_back(cigar[i]); in initialize()224 aug_cigar.push_back(cigar[i]); in initialize()279 for (uint32_t i=0; i<aug_cigar.size(); ++i) in initialize()282 char opchr = bam_cigar_opchr(aug_cigar[i]); in initialize()348 aug_cigar.clear(); in clear()451 for (uint32_t i=0; i<aug_cigar.size(); ++i) in print()453 oplen = bam_cigar_oplen(aug_cigar[i]); in print()454 opchr = bam_cigar_opchr(aug_cigar[i]); in print()468 for (uint32_t i=0; i<aug_cigar.size(); ++i) in print()470 oplen = bam_cigar_oplen(aug_cigar[i]); in print()[all …]
633 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in collect_sufficient_statistics() local641 for (uint32_t i=0; i<aug_cigar.size(); ++i) in collect_sufficient_statistics()644 char opchr = bam_cigar_opchr(aug_cigar[i]); in collect_sufficient_statistics()763 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in collect_sufficient_statistics() local771 for (uint32_t i=0; i<aug_cigar.size(); ++i) in collect_sufficient_statistics()902 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in collect_sufficient_statistics() local1187 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in collect_sufficient_statistics() local1465 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in collect_sufficient_statistics() local1483 for (uint32_t i=0; i<aug_cigar.size(); ++i) in collect_sufficient_statistics()1486 char opchr = bam_cigar_opchr(aug_cigar[i]); in collect_sufficient_statistics()[all …]
477 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local485 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()487 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()488 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()575 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local584 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()586 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()587 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()
478 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local486 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()488 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()489 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()566 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local574 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()576 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()577 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()
494 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local503 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()505 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()506 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()619 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local628 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()630 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()631 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()
530 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local539 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()541 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()542 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()655 std::vector<uint32_t>& aug_cigar = as.aug_cigar; in process_read() local664 for (uint32_t i=0; i<aug_cigar.size(); ++i) in process_read()666 uint32_t oplen = bam_cigar_oplen(aug_cigar[i]); in process_read()667 char opchr = bam_cigar_opchr(aug_cigar[i]); in process_read()
66 std::vector<uint32_t> aug_cigar; variable