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Searched refs:TContigAnchorGaps (Results 1 – 7 of 7) sorted by relevance

/dports/biology/seqan1/seqan-1.3.1/seqan/store/
H A Dstore_io_bam.h82 typedef StringSet<String<typename TFragmentStore::TContigGapAnchor> > TContigAnchorGaps; in read() typedef
86 TContigAnchorGaps contigAnchorGaps; in read()
100 template <typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TMatchMateInfos>
105 TContigAnchorGaps & contigAnchorGaps, in _readAlignments()
143 template <typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TMatchMateInfos, t…
149 TContigAnchorGaps & contigAnchorGaps, in _readOneAlignment()
174 typedef Gaps<Nothing, AnchorGaps<typename Value<TContigAnchorGaps>::Type> > TContigGapsPW; in _readOneAlignment()
H A Dstore_io_sam.h605 typedef StringSet<String<typename TFragmentStore::TContigGapAnchor> > TContigAnchorGaps; in read() typedef
609 TContigAnchorGaps contigAnchorGaps; in read()
649 …template<typename TFile, typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TM…
654 TContigAnchorGaps & contigAnchorGaps, in _readAlignments()
692 …template<typename TFile, typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TM…
697 TContigAnchorGaps & contigAnchorGaps, in _readOneAlignment()
723 typedef Gaps<Nothing, AnchorGaps<typename Value<TContigAnchorGaps>::Type> > TContigGapsPW; in _readOneAlignment()
H A Dstore_generated_forwards.h513 …TContigAnchorGaps, typename TMatchMateInfos, typename TChar> inline void _readAlignments ( TFile &…
523 …TContigAnchorGaps, typename TMatchMateInfos, typename TChar, typename TContextSAM> inline void _re…
1251 …TContigAnchorGaps, typename TMatchMateInfos> inline void _readAlignments( samfile_t * file, Fragme…
1256 …TContigAnchorGaps, typename TMatchMateInfos, typename TContextBAM> inline void _readOneAlignment (…
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/store/
H A Dstore_io_sam.h79 typedef String<typename TFragmentStore::TContigGapAnchor> TContigAnchorGaps; typedef
84 TContigAnchorGaps contigGapAnchors;
316 …gSet<String<typename TFragmentStore::TContigGapAnchor>, Owner<ConcatDirect<> > > TContigAnchorGaps;
320 TContigAnchorGaps contigAnchorGaps;
394 template <typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TMatchMateInfos,
400 TContigAnchorGaps & contigAnchorGaps,
534 typename TContigAnchorGaps,
541 TContigAnchorGaps & contigAnchorGaps,
566 typedef Gaps<Nothing, AnchorGaps<typename TSAMContext::TContigAnchorGaps> > TContigGapsPW;
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/store/
H A Dstore_io_sam.h79 typedef String<typename TFragmentStore::TContigGapAnchor> TContigAnchorGaps; typedef
84 TContigAnchorGaps contigGapAnchors;
316 …gSet<String<typename TFragmentStore::TContigGapAnchor>, Owner<ConcatDirect<> > > TContigAnchorGaps;
320 TContigAnchorGaps contigAnchorGaps;
394 template <typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TMatchMateInfos,
400 TContigAnchorGaps & contigAnchorGaps,
534 typename TContigAnchorGaps,
541 TContigAnchorGaps & contigAnchorGaps,
566 typedef Gaps<Nothing, AnchorGaps<typename TSAMContext::TContigAnchorGaps> > TContigGapsPW;
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/store/
H A Dstore_io_sam.h79 typedef String<typename TFragmentStore::TContigGapAnchor> TContigAnchorGaps; typedef
84 TContigAnchorGaps contigGapAnchors;
316 …gSet<String<typename TFragmentStore::TContigGapAnchor>, Owner<ConcatDirect<> > > TContigAnchorGaps;
320 TContigAnchorGaps contigAnchorGaps;
408 template <typename TSpec, typename TConfig, typename TContigAnchorGaps, typename TMatchMateInfos,
414 TContigAnchorGaps & contigAnchorGaps,
548 typename TContigAnchorGaps,
555 TContigAnchorGaps & contigAnchorGaps,
580 typedef Gaps<Nothing, AnchorGaps<typename TSAMContext::TContigAnchorGaps> > TContigGapsPW;
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools/
H A Dcasbar.h525 …typename TFragmentStore::TContigGapAnchor> TContigAnchorGaps;
526 typedef Gaps<Nothing, AnchorGaps<TContigAnchorGaps> > TContigGaps;
530 …typename TFragmentStore::TContigGapAnchor> TContigAnchorGaps;
704 TContigAnchorGaps contigGapAnchors;