/dports/biology/seqan/seqan-library-2.4.0/include/seqan/bam_io/ |
H A D | bam_io_context.h | 177 (TNameStoreCache*)NULL, in BamIOContext() 209 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 220 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 223 typedef TNameStoreCache Type; 231 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 270 template <typename TNameStore, typename TNameStoreCache> 331 inline TNameStoreCache & 334 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); 338 inline TNameStoreCache const & 344 template <typename TNameStore, typename TNameStoreCache> [all …]
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H A D | bam_file.h | 112 typedef NameStoreCache<TNameStore> TNameStoreCache; 113 typedef BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> Type; 152 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 162 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 214 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 224 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 273 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 277 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 287 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 315 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, [all …]
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H A D | write_sam.h | 50 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 53 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & /*context*/, in write() argument 82 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 85 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & context, in write() argument 125 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 128 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & context, in write() argument
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H A D | read_sam.h | 130 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 133 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 201 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 204 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 253 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 256 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context,
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/bam_io/ |
H A D | bam_io_context.h | 177 (TNameStoreCache*)NULL, in BamIOContext() 209 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 220 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 223 typedef TNameStoreCache Type; 231 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 270 template <typename TNameStore, typename TNameStoreCache> 331 inline TNameStoreCache & 334 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); 338 inline TNameStoreCache const & 344 template <typename TNameStore, typename TNameStoreCache> [all …]
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H A D | bam_file.h | 112 typedef NameStoreCache<TNameStore> TNameStoreCache; 113 typedef BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> Type; 152 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 162 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 214 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 224 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 273 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 277 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 287 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 315 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, [all …]
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H A D | write_sam.h | 50 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 53 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & /*context*/, in write() argument 82 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 85 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & context, in write() argument 125 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 128 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & context, in write() argument
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H A D | read_sam.h | 130 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 133 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 201 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 204 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 253 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 256 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context,
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/bam_io/ |
H A D | bam_io_context.h | 177 (TNameStoreCache*)NULL, in BamIOContext() 209 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 220 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 223 typedef TNameStoreCache Type; 231 struct Member<BamIOContext<TNameStore, TNameStoreCache, TStorageSpec>, 270 template <typename TNameStore, typename TNameStoreCache> 331 inline TNameStoreCache & 334 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); 338 inline TNameStoreCache const & 344 template <typename TNameStore, typename TNameStoreCache> [all …]
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H A D | bam_file.h | 112 typedef NameStoreCache<TNameStore> TNameStoreCache; 113 typedef BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> Type; 152 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 162 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 214 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 224 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 274 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 278 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, 288 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 316 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & /* context */, [all …]
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H A D | write_sam.h | 50 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 53 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & /*context*/, in write() argument 82 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 85 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & context, in write() argument 125 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 128 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> const & context, in write() argument
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H A D | read_sam.h | 130 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 133 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 201 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 204 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, 253 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 256 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context,
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H A D | write_bam.h | 51 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 54 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in write() argument 238 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 241 BamIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in write() argument
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/vcf_io/ |
H A D | vcf_io_context.h | 77 typedef TNameStoreCache_ TNameStoreCache; typedef 95 (TNameStoreCache*)NULL, in VcfIOContext() 99 (TNameStoreCache*)NULL, in VcfIOContext() 110 (TNameStoreCache*)NULL, in VcfIOContext() 172 inline TNameStoreCache & 175 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); in contigNamesCache() 179 inline TNameStoreCache const & 182 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); in contigNamesCache() 211 inline TNameStoreCache & 214 return _referenceCast<TNameStoreCache &>(context._sampleNamesCache); in sampleNamesCache() [all …]
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H A D | read_vcf.h | 67 template <typename TNameStore, typename TNameStoreCache, typename TStorageSpec, typename TString> 69 _readVcfContig(VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, TString const & h… in _readVcfContig() argument 101 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 104 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in readHeader() argument 166 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 169 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in readRecord() argument
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H A D | write_vcf.h | 48 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 52 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in writeHeader() argument 77 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 81 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in writeRecord() argument
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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/vcf_io/ |
H A D | vcf_io_context.h | 77 typedef TNameStoreCache_ TNameStoreCache; typedef 95 (TNameStoreCache*)NULL, in VcfIOContext() 99 (TNameStoreCache*)NULL, in VcfIOContext() 110 (TNameStoreCache*)NULL, in VcfIOContext() 172 inline TNameStoreCache & 175 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); in contigNamesCache() 179 inline TNameStoreCache const & 182 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); in contigNamesCache() 211 inline TNameStoreCache & 214 return _referenceCast<TNameStoreCache &>(context._sampleNamesCache); in sampleNamesCache() [all …]
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H A D | read_vcf.h | 67 template <typename TNameStore, typename TNameStoreCache, typename TStorageSpec, typename TString> 69 _readVcfContig(VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, TString const & h… in _readVcfContig() argument 101 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 104 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in readHeader() argument 166 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 169 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in readRecord() argument
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H A D | write_vcf.h | 48 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 52 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in writeHeader() argument 77 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 81 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in writeRecord() argument
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/vcf_io/ |
H A D | vcf_io_context.h | 77 typedef TNameStoreCache_ TNameStoreCache; typedef 95 (TNameStoreCache*)NULL, in VcfIOContext() 99 (TNameStoreCache*)NULL, in VcfIOContext() 110 (TNameStoreCache*)NULL, in VcfIOContext() 172 inline TNameStoreCache & 175 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); in contigNamesCache() 179 inline TNameStoreCache const & 182 return _referenceCast<TNameStoreCache &>(context._contigNamesCache); in contigNamesCache() 211 inline TNameStoreCache & 214 return _referenceCast<TNameStoreCache &>(context._sampleNamesCache); in sampleNamesCache() [all …]
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H A D | write_vcf.h | 48 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 52 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in writeHeader() argument 77 template <typename TTarget, typename TNameStore, typename TNameStoreCache, typename TStorageSpec> 81 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in writeRecord() argument
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H A D | read_vcf.h | 84 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 87 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in readHeader() argument 148 template <typename TForwardIter, typename TNameStore, typename TNameStoreCache, typename TStorageSp… 151 VcfIOContext<TNameStore, TNameStoreCache, TStorageSpec> & context, in readRecord() argument
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/dports/biology/seqan/seqan-library-2.4.0/share/doc/seqan/html/demos/dox/misc/ |
H A D | name_store_cache.cpp | 11 typedef NameStoreCache<TNameStore> TNameStoreCache; in main() typedef 25 TNameStoreCache nameStoreCache(nameStore); in main()
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/demos/dox/misc/ |
H A D | name_store_cache.cpp | 11 typedef NameStoreCache<TNameStore> TNameStoreCache; in main() typedef 25 TNameStoreCache nameStoreCache(nameStore); in main()
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/bam_io/ |
H A D | test_bam_io_context.h | 63 typedef NameStoreCache<TNameStore> TNameStoreCache; in SEQAN_DEFINE_TEST() typedef 66 …BamIOContext<TNameStore, TNameStoreCache> bamIOContext(store.contigNameStore, store.contigNameStor… in SEQAN_DEFINE_TEST()
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