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Adding helper functions for mates in BAM records #244

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merged 1 commit into from
Oct 18, 2024
Merged

Adding helper functions for mates in BAM records #244

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13 changes: 12 additions & 1 deletion src/common/bam_record_utils.hpp
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Original file line number Diff line number Diff line change
Expand Up @@ -205,6 +205,16 @@ get_pos(const bamxx::bam_rec &b) {
return b.b->core.pos;
}

inline int32_t
get_mtid(const bamxx::bam_rec &b) {
return b.b->core.mtid;
}

inline hts_pos_t
get_mpos(const bamxx::bam_rec &b) {
return b.b->core.mpos;
}

inline uint32_t
get_n_cigar(const bamxx::bam_rec &b) {
return b.b->core.n_cigar;
Expand Down Expand Up @@ -253,7 +263,8 @@ equivalent_end_and_strand(const bamxx::bam_rec &a, const bamxx::bam_rec &b) {
return bam_endpos(a.b) == bam_endpos(b.b) && bam_is_rev(a) == bam_is_rev(b);
}

template<typename T> int
template <typename T>
int
bam_aux_update_int(bamxx::bam_rec &b, const char tag[2], T val) {
return bam_aux_update_int(b.b, tag, val);
}
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