Searched refs:explicit_tlen (Results 1 – 6 of 6) sorted by relevance
| /dports/biology/py-pysam/pysam-0.18.0/htslib/cram/ |
| H A D | cram_structs.h | 496 int64_t explicit_tlen;// TS, but PNEXT/RNEXT still need auto-computing member
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| H A D | cram_decode.c | 2204 if (cr->explicit_tlen != INT64_MIN) in cram_decode_slice_xref()
2205 cr->tlen = cr->explicit_tlen; in cram_decode_slice_xref()
2626 cr->explicit_tlen = INT64_MIN; in cram_decode_slice()
2727 r = cram_decode_tlen(fd, c, s, blk, &cr->explicit_tlen); in cram_decode_slice()
2736 r = cram_decode_tlen(fd, c, s, blk, &cr->explicit_tlen); in cram_decode_slice()
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| H A D | cram_encode.c | 3196 int explicit_tlen = 0; in process_one_read() local
3208 explicit_tlen = CRAM_FLAG_EXPLICIT_TLEN; in process_one_read()
3227 cr->tlen = explicit_tlen ? bam_ins_size(b) : sign*(aright-aleft+1); in process_one_read()
3254 cr->cram_flags |= explicit_tlen; in process_one_read()
3265 p->cram_flags |= CRAM_FLAG_MATE_DOWNSTREAM | explicit_tlen;; in process_one_read()
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| /dports/biology/htslib/htslib-1.14/cram/ |
| H A D | cram_structs.h | 496 int64_t explicit_tlen;// TS, but PNEXT/RNEXT still need auto-computing member
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| H A D | cram_decode.c | 2204 if (cr->explicit_tlen != INT64_MIN) in cram_decode_slice_xref()
2205 cr->tlen = cr->explicit_tlen; in cram_decode_slice_xref()
2626 cr->explicit_tlen = INT64_MIN; in cram_decode_slice()
2727 r = cram_decode_tlen(fd, c, s, blk, &cr->explicit_tlen); in cram_decode_slice()
2736 r = cram_decode_tlen(fd, c, s, blk, &cr->explicit_tlen); in cram_decode_slice()
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| H A D | cram_encode.c | 3196 int explicit_tlen = 0; in process_one_read() local
3208 explicit_tlen = CRAM_FLAG_EXPLICIT_TLEN; in process_one_read()
3227 cr->tlen = explicit_tlen ? bam_ins_size(b) : sign*(aright-aleft+1); in process_one_read()
3254 cr->cram_flags |= explicit_tlen; in process_one_read()
3265 p->cram_flags |= CRAM_FLAG_MATE_DOWNSTREAM | explicit_tlen;; in process_one_read()
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