| /dports/biology/vt/vt-0.57721/ |
| H A D | sort.cpp | 35 if (bcf_get_rid(u)==bcf_get_rid(v)) in bcf_compare()
40 return (bcf_get_rid(u)-bcf_get_rid(v)); in bcf_compare()
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| H A D | ordered_bcf_overlap_matcher.cpp | 181 int32_t crid = bcf_get_rid(*i); in overlaps_with()
235 int32_t crid = bcf_get_rid(v); in overlaps_with()
294 int32_t crid = bcf_get_rid(*i); in overlaps_with()
347 int32_t crid = bcf_get_rid(v); in overlaps_with()
626 return (rid==bcf_get_rid(v) && beg1==bcf_get_pos1(v) && end1==bcf_get_end1(v)); in is_exact_match()
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| H A D | bcf_ordered_writer.cpp | 141 if (bcf_get_rid(v)==bcf_get_rid(buffer.back())) in write()
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| H A D | bcf_synced_reader.cpp | 304 pq.push(new bcfptr(i, bcf_get_rid(v), bcf_get_pos1(v), hdrs[i], v, sync_by_pos)); in insert_into_pq()
583 int32_t rid = buffer[i].size()==0 ? -1 : bcf_get_rid(buffer[i].front()); in fill_buffer()
609 rid = bcf_get_rid(v); in fill_buffer()
613 if (bcf_get_rid(v)!=rid || bcf_get_pos1(v)!=pos1) in fill_buffer()
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| H A D | vntr_annotator.cpp | 70 variant.rid = bcf_get_rid(v); in annotate()
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| H A D | indel_annotator.cpp | 70 variant.rid = bcf_get_rid(v); in annotate()
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| H A D | decompose_blocksub.cpp | 221 int32_t rid = bcf_get_rid(v); in decompose_blocksub()
284 int32_t rid = bcf_get_rid(v); in decompose_blocksub()
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| H A D | hts_utils.cpp | 1063 if (bcf_get_rid(a)==bcf_get_rid(b)) in bcf_is_in_order()
1068 return bcf_get_rid(a)<bcf_get_rid(b); in bcf_is_in_order()
1080 bcf_set_rid(nv, bcf_get_rid(v)); in bcf_copy_variant()
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| H A D | variant.cpp | 37 rid = bcf_get_rid(v); in Variant()
214 rid = bcf_get_rid(v); in classify()
487 vntr.motif = bcf_get_rid(v); in update_vntr_from_info_fields()
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| H A D | consolidate.cpp | 488 bcf_set_rid(v, bcf_get_rid(vs[0])); in consolidate_multiallelic()
625 bcf_set_rid(v, bcf_get_rid(candidate_indel_vs[0])); in consolidate_multiallelic()
725 bcf_set_rid(v, bcf_get_rid(vs[0])); in consolidate_multiallelic()
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| H A D | validate.cpp | 136 int32_t rid = bcf_get_rid(v); in validate()
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| H A D | filter_overlap.cpp | 140 int32_t rid = bcf_get_rid(v); in filter_overlap()
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| H A D | vntrize.cpp | 205 int32_t rid = bcf_get_rid(v); in vntrize()
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| H A D | profile_chrom.cpp | 163 int32_t rid = bcf_get_rid(v); in profile_chrom()
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| H A D | complex_genotyping_record.cpp | 35 this->rid = bcf_get_rid(v); in ComplexGenotypingRecord()
106 rid = bcf_get_rid(v); in ComplexGenotypingRecord()
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| H A D | profile_vntrs.cpp | 268 int32_t rid = bcf_get_rid(v); in profile_vntrs()
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| H A D | fuzzy_partition.cpp | 304 int32_t rid = bcf_get_rid(v); in fuzzy_partition()
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| H A D | hts_utils.h | 439 #define bcf_get_rid(v) ((v)->rid) macro
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| H A D | decompose2.cpp | 190 int32_t rid = bcf_get_rid(v); in decompose2()
371 int32_t rid = bcf_get_rid(v); in decompose2()
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| H A D | decompose.cpp | 220 int32_t rid = bcf_get_rid(v); in decompose()
401 int32_t rid = bcf_get_rid(v); in decompose()
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| H A D | peek.cpp | 222 if ((k = kh_get(32, h, bcf_get_rid(v)))==kh_end(h)) in peek()
224 kh_put(32, h, bcf_get_rid(v), &ret); in peek()
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| H A D | candidate_region_extractor.cpp | 229 vntr.rid = bcf_get_rid(v); in extract_regions_by_exact_alignment()
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| H A D | bcf_genotyping_buffered_reader.cpp | 2300 bcf_set_rid(v, bcf_get_rid(g->v)); in genotype_and_print()
2424 bcf_set_rid(v, bcf_get_rid(g->v)); in genotype_and_print()
2579 bcf_set_rid(v, bcf_get_rid(g->v)); in genotype_and_print()
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| H A D | variant_manip.cpp | 236 var.rid = bcf_get_rid(v); in classify_variant()
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| H A D | vntr_genotyping_record.cpp | 36 this->rid = bcf_get_rid(v); in VNTRGenotypingRecord()
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