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Searched refs:wants_full (Results 1 – 25 of 41) sorted by relevance

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/dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/ngs/adapter/
H A DReadCollectionItf.hpp69 …virtual ReadItf * getReads ( bool wants_full, bool wants_partial, bool wants_unaligned ) const = 0;
70 …virtual uint64_t getReadCount ( bool wants_full, bool wants_partial, bool wants_unaligned ) const …
71 …virtual ReadItf * getReadRange ( uint64_t first, uint64_t count, bool wants_full, bool wants_parti…
100 bool wants_full, bool wants_partial, bool wants_unaligned );
102 bool wants_full, bool wants_partial, bool wants_unaligned );
104 … uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned );
/dports/biology/ncbi-vdb/ngs-2.11.0/ngs-sdk/ngs/adapter/
H A DReadCollectionItf.hpp69 …virtual ReadItf * getReads ( bool wants_full, bool wants_partial, bool wants_unaligned ) const = 0;
70 …virtual uint64_t getReadCount ( bool wants_full, bool wants_partial, bool wants_unaligned ) const …
71 …virtual ReadItf * getReadRange ( uint64_t first, uint64_t count, bool wants_full, bool wants_parti…
100 bool wants_full, bool wants_partial, bool wants_unaligned );
102 bool wants_full, bool wants_partial, bool wants_unaligned );
104 … uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned );
/dports/biology/ngs-sdk/ngs-2.11.1/ngs-sdk/ngs/adapter/
H A DReadCollectionItf.hpp69 …virtual ReadItf * getReads ( bool wants_full, bool wants_partial, bool wants_unaligned ) const = 0;
70 …virtual uint64_t getReadCount ( bool wants_full, bool wants_partial, bool wants_unaligned ) const …
71 …virtual ReadItf * getReadRange ( uint64_t first, uint64_t count, bool wants_full, bool wants_parti…
100 bool wants_full, bool wants_partial, bool wants_unaligned );
102 bool wants_full, bool wants_partial, bool wants_unaligned );
104 … uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned );
/dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/libs/ngs/
H A DNGS_ReadCollection.h128 bool wants_full, bool wants_partial, bool wants_unaligned );
131 bool wants_full, bool wants_partial, bool wants_unaligned );
137 bool wants_full,
173 …* get_reads ) ( NGS_READCOLLECTION * self, ctx_t ctx, bool wants_full, bool wants_part…
176 bool wants_full, bool wants_partial, bool wants_unaligned );
177 …READCOLLECTION * self, ctx_t ctx, uint64_t first, uint64_t count, bool wants_full, bool wants_part…
H A DCSRA1_Read.c112 self -> wants_full = true; in CSRA1_ReadInit()
141 bool wants_full, in CSRA1_ReadIteratorInit() argument
156 self -> wants_full = wants_full; in CSRA1_ReadIteratorInit()
169 bool wants_full, in CSRA1_ReadIteratorMake() argument
192 …eadIteratorInit ( ctx, cref, "CSRA1_ReadIterator", instname, run_name, wants_full, wants_partial, … in CSRA1_ReadIteratorMake()
219 bool wants_full, in CSRA1_ReadIteratorMakeRange() argument
242 …eadIteratorInit ( ctx, cref, "CSRA1_ReadIterator", instname, run_name, wants_full, wants_partial, … in CSRA1_ReadIteratorMakeRange()
271 bool wants_full, in CSRA1_ReadIteratorMakeReadGroup() argument
282 wants_full, in CSRA1_ReadIteratorMakeReadGroup()
477 if ( self -> wants_full ) in CSRA1_ReadIteratorNext()
H A DCSRA1_Read.h63 bool wants_full,
75 bool wants_full,
88 bool wants_full,
H A DNGS_ReadCollection.c199 …eads ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part… in NGS_ReadCollection_v1_get_reads() argument
202 …ON_FAIL ( struct NGS_Read * ret = NGS_ReadCollectionGetReads ( Self ( self ), ctx, wants_full, wan… in NGS_ReadCollection_v1_get_reads()
211 …ount ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part… in NGS_ReadCollection_v1_get_read_count() argument
214 …ON_FAIL ( uint64_t ret = NGS_ReadCollectionGetReadCount ( Self ( self ), ctx, wants_full, wants_pa… in NGS_ReadCollection_v1_get_read_count()
226 …t = NGS_ReadCollectionGetReadRange ( Self ( self ), ctx, first, count, wants_full, wants_partial, … in NGS_ReadCollection_v1_read_range()
466 bool wants_full, bool wants_partial, bool wants_unaligned ) in NGS_ReadCollectionGetReads() argument
475 return VT ( self, get_reads ) ( self, ctx, wants_full, wants_partial, wants_unaligned ); in NGS_ReadCollectionGetReads()
499 bool wants_full, bool wants_partial, bool wants_unaligned ) in NGS_ReadCollectionGetReadCount() argument
508 … return VT ( self, get_read_count ) ( self, ctx, wants_full, wants_partial, wants_unaligned ); in NGS_ReadCollectionGetReadCount()
515 bool wants_full, bool wants_partial, bool wants_unaligned ) in NGS_ReadCollectionGetReadRange() argument
[all …]
H A DSRA_Read.h102 bool wants_full; member
137 bool wants_full,
153 bool wants_full,
166 bool wants_full,
H A DSRA_Read.c117 self -> wants_full = true; in SRA_ReadInit()
131 bool wants_full, in SRA_ReadIteratorInit() argument
145 self -> wants_full = wants_full; in SRA_ReadIteratorInit()
556 bool wants_full, in SRA_ReadIteratorMake() argument
578 …TRY ( SRA_ReadIteratorInit ( ctx, ref, "NGS_ReadIterator", instname, run_name, wants_full, wants_p… in SRA_ReadIteratorMake()
603 bool wants_full, in SRA_ReadIteratorMakeRange() argument
625 …TRY ( SRA_ReadIteratorInit ( ctx, ref, "NGS_ReadIterator", instname, run_name, wants_full, wants_p… in SRA_ReadIteratorMakeRange()
652 bool wants_full, in SRA_ReadIteratorMakeReadGroup() argument
663 wants_full, in SRA_ReadIteratorMakeReadGroup()
710 if ( ! self -> wants_full || in SRA_ReadIteratorNext()
[all …]
/dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/adapter/
H A DReadCollectionItf.cpp217 bool wants_full, bool wants_partial, bool wants_unaligned ) in get_reads() argument
222 ReadItf * val = self -> getReads ( wants_full, wants_partial, wants_unaligned ); in get_reads()
234 bool wants_full, bool wants_partial, bool wants_unaligned ) in get_read_count() argument
239 return self -> getReadCount ( wants_full, wants_partial, wants_unaligned ); in get_read_count()
250 … uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned ) in get_read_range() argument
255 … ReadItf * val = self -> getReadRange ( first, count, wants_full, wants_partial, wants_unaligned ); in get_read_range()
/dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/libs/ngs/
H A DNGS_ReadCollection.h128 bool wants_full, bool wants_partial, bool wants_unaligned );
131 bool wants_full, bool wants_partial, bool wants_unaligned );
137 bool wants_full,
173 …* get_reads ) ( NGS_READCOLLECTION * self, ctx_t ctx, bool wants_full, bool wants_part…
176 bool wants_full, bool wants_partial, bool wants_unaligned );
177 …READCOLLECTION * self, ctx_t ctx, uint64_t first, uint64_t count, bool wants_full, bool wants_part…
H A DCSRA1_Read.c112 self -> wants_full = true; in CSRA1_ReadInit()
141 bool wants_full, in CSRA1_ReadIteratorInit() argument
156 self -> wants_full = wants_full; in CSRA1_ReadIteratorInit()
169 bool wants_full, in CSRA1_ReadIteratorMake() argument
192 …eadIteratorInit ( ctx, cref, "CSRA1_ReadIterator", instname, run_name, wants_full, wants_partial, … in CSRA1_ReadIteratorMake()
219 bool wants_full, in CSRA1_ReadIteratorMakeRange() argument
242 …eadIteratorInit ( ctx, cref, "CSRA1_ReadIterator", instname, run_name, wants_full, wants_partial, … in CSRA1_ReadIteratorMakeRange()
271 bool wants_full, in CSRA1_ReadIteratorMakeReadGroup() argument
282 wants_full, in CSRA1_ReadIteratorMakeReadGroup()
477 if ( self -> wants_full ) in CSRA1_ReadIteratorNext()
H A DCSRA1_Read.h63 bool wants_full,
75 bool wants_full,
88 bool wants_full,
H A DNGS_ReadCollection.c199 …eads ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part… in NGS_ReadCollection_v1_get_reads() argument
202 …ON_FAIL ( struct NGS_Read * ret = NGS_ReadCollectionGetReads ( Self ( self ), ctx, wants_full, wan… in NGS_ReadCollection_v1_get_reads()
211 …ount ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part… in NGS_ReadCollection_v1_get_read_count() argument
214 …ON_FAIL ( uint64_t ret = NGS_ReadCollectionGetReadCount ( Self ( self ), ctx, wants_full, wants_pa… in NGS_ReadCollection_v1_get_read_count()
226 …t = NGS_ReadCollectionGetReadRange ( Self ( self ), ctx, first, count, wants_full, wants_partial, … in NGS_ReadCollection_v1_read_range()
466 bool wants_full, bool wants_partial, bool wants_unaligned ) in NGS_ReadCollectionGetReads() argument
475 return VT ( self, get_reads ) ( self, ctx, wants_full, wants_partial, wants_unaligned ); in NGS_ReadCollectionGetReads()
499 bool wants_full, bool wants_partial, bool wants_unaligned ) in NGS_ReadCollectionGetReadCount() argument
508 … return VT ( self, get_read_count ) ( self, ctx, wants_full, wants_partial, wants_unaligned ); in NGS_ReadCollectionGetReadCount()
515 bool wants_full, bool wants_partial, bool wants_unaligned ) in NGS_ReadCollectionGetReadRange() argument
[all …]
H A DSRA_Read.h102 bool wants_full; member
137 bool wants_full,
153 bool wants_full,
166 bool wants_full,
H A DSRA_Read.c117 self -> wants_full = true; in SRA_ReadInit()
131 bool wants_full, in SRA_ReadIteratorInit() argument
145 self -> wants_full = wants_full; in SRA_ReadIteratorInit()
556 bool wants_full, in SRA_ReadIteratorMake() argument
578 …TRY ( SRA_ReadIteratorInit ( ctx, ref, "NGS_ReadIterator", instname, run_name, wants_full, wants_p… in SRA_ReadIteratorMake()
603 bool wants_full, in SRA_ReadIteratorMakeRange() argument
625 …TRY ( SRA_ReadIteratorInit ( ctx, ref, "NGS_ReadIterator", instname, run_name, wants_full, wants_p… in SRA_ReadIteratorMakeRange()
652 bool wants_full, in SRA_ReadIteratorMakeReadGroup() argument
663 wants_full, in SRA_ReadIteratorMakeReadGroup()
710 if ( ! self -> wants_full || in SRA_ReadIteratorNext()
[all …]
/dports/biology/ncbi-vdb/ngs-2.11.0/ngs-sdk/adapter/
H A DReadCollectionItf.cpp217 bool wants_full, bool wants_partial, bool wants_unaligned ) in get_reads() argument
222 ReadItf * val = self -> getReads ( wants_full, wants_partial, wants_unaligned ); in get_reads()
234 bool wants_full, bool wants_partial, bool wants_unaligned ) in get_read_count() argument
239 return self -> getReadCount ( wants_full, wants_partial, wants_unaligned ); in get_read_count()
250 … uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned ) in get_read_range() argument
255 … ReadItf * val = self -> getReadRange ( first, count, wants_full, wants_partial, wants_unaligned ); in get_read_range()
/dports/biology/ngs-sdk/ngs-2.11.1/ngs-sdk/adapter/
H A DReadCollectionItf.cpp217 bool wants_full, bool wants_partial, bool wants_unaligned ) in get_reads() argument
222 ReadItf * val = self -> getReads ( wants_full, wants_partial, wants_unaligned ); in get_reads()
234 bool wants_full, bool wants_partial, bool wants_unaligned ) in get_read_count() argument
239 return self -> getReadCount ( wants_full, wants_partial, wants_unaligned ); in get_read_count()
250 … uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned ) in get_read_range() argument
255 … ReadItf * val = self -> getReadRange ( first, count, wants_full, wants_partial, wants_unaligned ); in get_read_range()
/dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/test/test_engine/
H A DReadCollectionItf.hpp112 …virtual ngs_adapt::ReadItf * getReads ( bool wants_full, bool wants_partial, bool wants_unaligned … in getReads() argument
117 … virtual uint64_t getReadCount ( bool wants_full, bool wants_partial, bool wants_unaligned ) const in getReadCount() argument
122 …virtual ngs_adapt::ReadItf * getReadRange ( uint64_t first, uint64_t count, bool wants_full, bool … in getReadRange() argument
/dports/biology/ncbi-vdb/ngs-2.11.0/ngs-sdk/test/test_engine/
H A DReadCollectionItf.hpp112 …virtual ngs_adapt::ReadItf * getReads ( bool wants_full, bool wants_partial, bool wants_unaligned … in getReads() argument
117 … virtual uint64_t getReadCount ( bool wants_full, bool wants_partial, bool wants_unaligned ) const in getReadCount() argument
122 …virtual ngs_adapt::ReadItf * getReadRange ( uint64_t first, uint64_t count, bool wants_full, bool … in getReadRange() argument
/dports/biology/ngs-sdk/ngs-2.11.1/ngs-sdk/test/test_engine/
H A DReadCollectionItf.hpp112 …virtual ngs_adapt::ReadItf * getReads ( bool wants_full, bool wants_partial, bool wants_unaligned … in getReads() argument
117 … virtual uint64_t getReadCount ( bool wants_full, bool wants_partial, bool wants_unaligned ) const in getReadCount() argument
122 …virtual ngs_adapt::ReadItf * getReadRange ( uint64_t first, uint64_t count, bool wants_full, bool … in getReadRange() argument
/dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/ngs/itf/
H A DReadCollectionItf.h74 …ds ) ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part…
75 …nt ) ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part…
77 uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned );
/dports/biology/ncbi-vdb/ngs-2.11.0/ngs-sdk/ngs/itf/
H A DReadCollectionItf.h74 …ds ) ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part…
75 …nt ) ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part…
77 uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned );
/dports/biology/ngs-sdk/ngs-2.11.1/ngs-sdk/ngs/itf/
H A DReadCollectionItf.h74 …ds ) ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part…
75 …nt ) ( const NGS_ReadCollection_v1 * self, NGS_ErrBlock_v1 * err, bool wants_full, bool wants_part…
77 uint64_t first, uint64_t count, bool wants_full, bool wants_partial, bool wants_unaligned );
/dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/dispatch/
H A DReadCollectionItf.cpp356 bool wants_full = ( categories & Read :: fullyAligned ) != 0; in getReads() local
359 …NGS_Read_v1 * ret = ( * vt -> get_reads ) ( self, & err, wants_full, wants_partial, wants_unalign… in getReads()
379 bool wants_full = ( categories & Read :: fullyAligned ) != 0; in getReadCount() local
382 …uint64_t ret = ( * vt -> get_read_count ) ( self, & err, wants_full, wants_partial, wants_unalign… in getReadCount()
422 bool wants_full = ( categories & Read :: fullyAligned ) != 0; in getReadRange() local
425 …NGS_Read_v1 * ret = ( * vt -> get_read_range ) ( self, & err, first, count, wants_full, wants_par… in getReadRange()

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